Multiple sequence alignment - TraesCS1D01G317100
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 | TraesCS1D01G317100 | chr1D | 100.000 | 5157 | 0 | 0 | 1495 | 6651 | 412074377 | 412079533 | 0.000000e+00 | 9524.0 |
1 | TraesCS1D01G317100 | chr1D | 100.000 | 1195 | 0 | 0 | 1 | 1195 | 412072883 | 412074077 | 0.000000e+00 | 2207.0 |
2 | TraesCS1D01G317100 | chr1D | 92.235 | 425 | 28 | 5 | 142 | 562 | 460919525 | 460919102 | 1.230000e-166 | 597.0 |
3 | TraesCS1D01G317100 | chr1D | 88.836 | 421 | 41 | 6 | 149 | 567 | 203869893 | 203869477 | 4.600000e-141 | 512.0 |
4 | TraesCS1D01G317100 | chr1D | 81.605 | 299 | 25 | 15 | 563 | 845 | 446813809 | 446813525 | 3.120000e-53 | 220.0 |
5 | TraesCS1D01G317100 | chr1D | 93.478 | 92 | 5 | 1 | 2282 | 2372 | 412074479 | 412074570 | 1.160000e-27 | 135.0 |
6 | TraesCS1D01G317100 | chr1D | 93.478 | 92 | 5 | 1 | 1597 | 1688 | 412075164 | 412075254 | 1.160000e-27 | 135.0 |
7 | TraesCS1D01G317100 | chr1D | 94.118 | 51 | 3 | 0 | 4100 | 4150 | 7036935 | 7036985 | 1.990000e-10 | 78.7 |
8 | TraesCS1D01G317100 | chr1B | 93.650 | 5213 | 195 | 44 | 1495 | 6651 | 555624731 | 555629863 | 0.000000e+00 | 7668.0 |
9 | TraesCS1D01G317100 | chr1B | 90.315 | 1239 | 54 | 26 | 1 | 1193 | 555623302 | 555624520 | 0.000000e+00 | 1563.0 |
10 | TraesCS1D01G317100 | chr1B | 81.847 | 314 | 25 | 14 | 563 | 846 | 436991882 | 436991571 | 1.120000e-57 | 235.0 |
11 | TraesCS1D01G317100 | chr1B | 93.396 | 106 | 4 | 2 | 6172 | 6277 | 572529353 | 572529455 | 3.210000e-33 | 154.0 |
12 | TraesCS1D01G317100 | chr1B | 92.453 | 106 | 7 | 1 | 6180 | 6285 | 301264579 | 301264475 | 4.150000e-32 | 150.0 |
13 | TraesCS1D01G317100 | chr1B | 91.579 | 95 | 3 | 2 | 2283 | 2372 | 555624848 | 555624942 | 7.000000e-25 | 126.0 |
14 | TraesCS1D01G317100 | chr1B | 91.228 | 57 | 5 | 0 | 2162 | 2218 | 574282521 | 574282577 | 1.990000e-10 | 78.7 |
15 | TraesCS1D01G317100 | chr1A | 93.383 | 3521 | 142 | 35 | 3166 | 6651 | 508630029 | 508633493 | 0.000000e+00 | 5127.0 |
16 | TraesCS1D01G317100 | chr1A | 95.115 | 1044 | 48 | 2 | 2166 | 3208 | 508628988 | 508630029 | 0.000000e+00 | 1642.0 |
17 | TraesCS1D01G317100 | chr1A | 89.080 | 1218 | 45 | 31 | 3 | 1193 | 508626587 | 508627743 | 0.000000e+00 | 1432.0 |
18 | TraesCS1D01G317100 | chr1A | 91.763 | 692 | 39 | 6 | 1495 | 2168 | 508628248 | 508628939 | 0.000000e+00 | 946.0 |
19 | TraesCS1D01G317100 | chr1A | 94.624 | 93 | 3 | 2 | 1599 | 1690 | 508629107 | 508629198 | 6.950000e-30 | 143.0 |
20 | TraesCS1D01G317100 | chr1A | 93.478 | 92 | 5 | 1 | 2282 | 2372 | 508628361 | 508628452 | 1.160000e-27 | 135.0 |
21 | TraesCS1D01G317100 | chr1A | 90.476 | 63 | 6 | 0 | 4101 | 4163 | 477033501 | 477033563 | 4.270000e-12 | 84.2 |
22 | TraesCS1D01G317100 | chr2A | 86.264 | 779 | 82 | 19 | 4321 | 5082 | 136341527 | 136340757 | 0.000000e+00 | 822.0 |
23 | TraesCS1D01G317100 | chr2A | 84.380 | 685 | 95 | 9 | 2227 | 2904 | 136343858 | 136343179 | 0.000000e+00 | 662.0 |
24 | TraesCS1D01G317100 | chr2A | 84.615 | 598 | 77 | 13 | 2899 | 3492 | 136343025 | 136342439 | 1.240000e-161 | 580.0 |
25 | TraesCS1D01G317100 | chr2A | 85.325 | 477 | 63 | 5 | 5039 | 5512 | 136340754 | 136340282 | 2.790000e-133 | 486.0 |
26 | TraesCS1D01G317100 | chr2A | 80.952 | 378 | 67 | 4 | 2452 | 2826 | 53076270 | 53076645 | 1.810000e-75 | 294.0 |
27 | TraesCS1D01G317100 | chr2A | 79.452 | 365 | 66 | 8 | 2453 | 2812 | 53068310 | 53068670 | 3.980000e-62 | 250.0 |
28 | TraesCS1D01G317100 | chr2A | 81.703 | 317 | 23 | 16 | 563 | 848 | 728596505 | 728596193 | 1.440000e-56 | 231.0 |
29 | TraesCS1D01G317100 | chr2A | 77.836 | 379 | 70 | 8 | 2436 | 2812 | 53055362 | 53055728 | 8.680000e-54 | 222.0 |
30 | TraesCS1D01G317100 | chr2A | 77.165 | 381 | 69 | 8 | 2436 | 2812 | 53052509 | 53052875 | 8.740000e-49 | 206.0 |
31 | TraesCS1D01G317100 | chr2D | 85.954 | 776 | 89 | 15 | 4321 | 5082 | 130431155 | 130430386 | 0.000000e+00 | 811.0 |
32 | TraesCS1D01G317100 | chr2D | 84.255 | 597 | 80 | 11 | 2899 | 3491 | 130432917 | 130432331 | 2.690000e-158 | 569.0 |
33 | TraesCS1D01G317100 | chr2D | 85.748 | 428 | 51 | 6 | 5039 | 5463 | 130430383 | 130429963 | 1.700000e-120 | 444.0 |
34 | TraesCS1D01G317100 | chr2D | 80.964 | 394 | 68 | 6 | 2437 | 2826 | 51938613 | 51939003 | 8.380000e-79 | 305.0 |
35 | TraesCS1D01G317100 | chr2D | 82.132 | 319 | 25 | 13 | 563 | 851 | 308981728 | 308981412 | 1.850000e-60 | 244.0 |
36 | TraesCS1D01G317100 | chr2D | 79.191 | 173 | 23 | 6 | 1697 | 1858 | 130433852 | 130433682 | 2.540000e-19 | 108.0 |
37 | TraesCS1D01G317100 | chr2D | 96.000 | 50 | 2 | 0 | 4100 | 4149 | 638323118 | 638323167 | 1.540000e-11 | 82.4 |
38 | TraesCS1D01G317100 | chr2B | 85.935 | 775 | 90 | 14 | 4321 | 5082 | 183659823 | 183659055 | 0.000000e+00 | 809.0 |
39 | TraesCS1D01G317100 | chr2B | 84.899 | 596 | 77 | 10 | 2899 | 3491 | 183661323 | 183660738 | 2.070000e-164 | 590.0 |
40 | TraesCS1D01G317100 | chr2B | 86.093 | 453 | 53 | 6 | 5039 | 5489 | 183659052 | 183658608 | 4.670000e-131 | 479.0 |
41 | TraesCS1D01G317100 | chr2B | 83.391 | 289 | 22 | 10 | 565 | 836 | 671166065 | 671166344 | 1.850000e-60 | 244.0 |
42 | TraesCS1D01G317100 | chr2B | 79.769 | 173 | 23 | 5 | 1697 | 1858 | 183662256 | 183662085 | 1.520000e-21 | 115.0 |
43 | TraesCS1D01G317100 | chr4D | 90.780 | 423 | 34 | 4 | 143 | 562 | 505256182 | 505256602 | 1.620000e-155 | 560.0 |
44 | TraesCS1D01G317100 | chr4D | 88.626 | 422 | 46 | 2 | 143 | 563 | 126895543 | 126895963 | 4.600000e-141 | 512.0 |
45 | TraesCS1D01G317100 | chr6D | 90.307 | 423 | 37 | 4 | 143 | 562 | 39567679 | 39568100 | 9.750000e-153 | 551.0 |
46 | TraesCS1D01G317100 | chr6D | 89.474 | 418 | 42 | 2 | 148 | 563 | 3319624 | 3319207 | 1.640000e-145 | 527.0 |
47 | TraesCS1D01G317100 | chr7D | 89.549 | 421 | 41 | 3 | 143 | 560 | 422616996 | 422617416 | 1.270000e-146 | 531.0 |
48 | TraesCS1D01G317100 | chr7D | 93.396 | 106 | 5 | 2 | 6180 | 6285 | 190163215 | 190163112 | 8.930000e-34 | 156.0 |
49 | TraesCS1D01G317100 | chr5B | 86.992 | 246 | 13 | 10 | 563 | 791 | 503082289 | 503082046 | 6.620000e-65 | 259.0 |
50 | TraesCS1D01G317100 | chr5B | 85.143 | 175 | 14 | 6 | 603 | 765 | 654948141 | 654948315 | 1.150000e-37 | 169.0 |
51 | TraesCS1D01G317100 | chr5B | 85.714 | 70 | 7 | 3 | 4101 | 4168 | 218214388 | 218214456 | 3.330000e-08 | 71.3 |
52 | TraesCS1D01G317100 | chr6A | 81.620 | 321 | 20 | 17 | 563 | 846 | 325139012 | 325139330 | 5.190000e-56 | 230.0 |
53 | TraesCS1D01G317100 | chr3A | 80.328 | 305 | 31 | 14 | 563 | 846 | 59422900 | 59423196 | 3.140000e-48 | 204.0 |
54 | TraesCS1D01G317100 | chr5D | 93.750 | 112 | 5 | 2 | 6177 | 6287 | 228446959 | 228447069 | 4.130000e-37 | 167.0 |
55 | TraesCS1D01G317100 | chr7B | 93.578 | 109 | 5 | 2 | 6180 | 6287 | 171060386 | 171060279 | 1.920000e-35 | 161.0 |
56 | TraesCS1D01G317100 | chr3D | 94.231 | 104 | 4 | 2 | 6180 | 6283 | 502889145 | 502889246 | 2.480000e-34 | 158.0 |
57 | TraesCS1D01G317100 | chr3D | 91.228 | 57 | 5 | 0 | 4101 | 4157 | 603265244 | 603265188 | 1.990000e-10 | 78.7 |
58 | TraesCS1D01G317100 | chr4B | 91.743 | 109 | 7 | 2 | 6180 | 6287 | 426876349 | 426876242 | 4.150000e-32 | 150.0 |
59 | TraesCS1D01G317100 | chr4B | 81.481 | 135 | 13 | 5 | 728 | 850 | 633294306 | 633294440 | 4.240000e-17 | 100.0 |
60 | TraesCS1D01G317100 | chr7A | 77.990 | 209 | 16 | 15 | 673 | 854 | 94702339 | 94702544 | 3.280000e-18 | 104.0 |
61 | TraesCS1D01G317100 | chr3B | 87.671 | 73 | 9 | 0 | 726 | 798 | 704288914 | 704288986 | 1.190000e-12 | 86.1 |
62 | TraesCS1D01G317100 | chr5A | 88.525 | 61 | 6 | 1 | 4100 | 4159 | 362781652 | 362781592 | 9.250000e-09 | 73.1 |
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 | TraesCS1D01G317100 | chr1D | 412072883 | 412079533 | 6650 | False | 5865.500000 | 9524 | 100.000000 | 1 | 6651 | 2 | chr1D.!!$F2 | 6650 |
1 | TraesCS1D01G317100 | chr1B | 555623302 | 555629863 | 6561 | False | 4615.500000 | 7668 | 91.982500 | 1 | 6651 | 2 | chr1B.!!$F4 | 6650 |
2 | TraesCS1D01G317100 | chr1A | 508626587 | 508633493 | 6906 | False | 1570.833333 | 5127 | 92.907167 | 3 | 6651 | 6 | chr1A.!!$F2 | 6648 |
3 | TraesCS1D01G317100 | chr2A | 136340282 | 136343858 | 3576 | True | 637.500000 | 822 | 85.146000 | 2227 | 5512 | 4 | chr2A.!!$R2 | 3285 |
4 | TraesCS1D01G317100 | chr2A | 53052509 | 53055728 | 3219 | False | 214.000000 | 222 | 77.500500 | 2436 | 2812 | 2 | chr2A.!!$F3 | 376 |
5 | TraesCS1D01G317100 | chr2D | 130429963 | 130433852 | 3889 | True | 483.000000 | 811 | 83.787000 | 1697 | 5463 | 4 | chr2D.!!$R2 | 3766 |
6 | TraesCS1D01G317100 | chr2B | 183658608 | 183662256 | 3648 | True | 498.250000 | 809 | 84.174000 | 1697 | 5489 | 4 | chr2B.!!$R1 | 3792 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
867 | 914 | 2.275380 | GGGCCGTGGCATTTGTCTT | 61.275 | 57.895 | 13.76 | 0.0 | 44.11 | 3.01 | F |
1952 | 2232 | 0.400213 | CCAGCCCTTCCTTGTGTACA | 59.600 | 55.000 | 0.00 | 0.0 | 0.00 | 2.90 | F |
2570 | 4695 | 0.537143 | TTGCGGCTGGTTCTGTCATT | 60.537 | 50.000 | 0.00 | 0.0 | 0.00 | 2.57 | F |
4080 | 6767 | 0.179089 | CCTCTCAGATCCAACGCTGG | 60.179 | 60.000 | 0.00 | 0.0 | 45.08 | 4.85 | F |
5622 | 8708 | 0.963962 | TCTTTGAGGAGTACGCCGTT | 59.036 | 50.000 | 10.22 | 0.0 | 0.00 | 4.44 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2723 | 4852 | 0.313672 | GAGGCCTGACTAGAGCGATG | 59.686 | 60.000 | 12.00 | 0.00 | 0.00 | 3.84 | R |
3015 | 5432 | 2.821546 | TGAACATCCCAATCGACGATC | 58.178 | 47.619 | 11.42 | 0.00 | 0.00 | 3.69 | R |
4207 | 6904 | 3.535561 | AGATTCATCAGCCAAGGTAACG | 58.464 | 45.455 | 0.00 | 0.00 | 46.39 | 3.18 | R |
5625 | 8711 | 0.242825 | TGACGGCGTACTCCTCAAAG | 59.757 | 55.000 | 14.74 | 0.00 | 0.00 | 2.77 | R |
6496 | 9595 | 4.345859 | TGGTTTCTACATGTTCGAACCT | 57.654 | 40.909 | 24.78 | 13.13 | 0.00 | 3.50 | 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 |
---|---|---|---|---|---|---|---|---|---|
82 | 83 | 7.221452 | GCAGCTACATCATTAAAAACTTCCATG | 59.779 | 37.037 | 0.00 | 0.00 | 0.00 | 3.66 |
275 | 283 | 8.902806 | CAAGAATGTTATGTGTATGTGGGTAAT | 58.097 | 33.333 | 0.00 | 0.00 | 0.00 | 1.89 |
315 | 323 | 4.612712 | CGTTGAAATGCGACCTGTACAAAT | 60.613 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
417 | 425 | 4.497473 | TTTCAACGTATTTTGCCCTGAG | 57.503 | 40.909 | 0.00 | 0.00 | 0.00 | 3.35 |
429 | 437 | 3.500448 | TGCCCTGAGAATTTACACACA | 57.500 | 42.857 | 0.00 | 0.00 | 0.00 | 3.72 |
430 | 438 | 4.032960 | TGCCCTGAGAATTTACACACAT | 57.967 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
526 | 538 | 6.938542 | TGAAATTCGAAATTTTCAAAACCGG | 58.061 | 32.000 | 19.54 | 0.00 | 38.52 | 5.28 |
531 | 543 | 2.432206 | AATTTTCAAAACCGGGCTCG | 57.568 | 45.000 | 6.32 | 0.00 | 0.00 | 5.03 |
571 | 583 | 7.017645 | CCAAAGACAATATTCGACAAAGACTG | 58.982 | 38.462 | 0.00 | 0.00 | 0.00 | 3.51 |
850 | 897 | 2.350498 | CCGTTTGTTCGGCTATAGTTGG | 59.650 | 50.000 | 0.84 | 0.00 | 43.96 | 3.77 |
866 | 913 | 2.676471 | GGGCCGTGGCATTTGTCT | 60.676 | 61.111 | 13.76 | 0.00 | 44.11 | 3.41 |
867 | 914 | 2.275380 | GGGCCGTGGCATTTGTCTT | 61.275 | 57.895 | 13.76 | 0.00 | 44.11 | 3.01 |
873 | 920 | 3.074412 | CCGTGGCATTTGTCTTAGACTT | 58.926 | 45.455 | 13.86 | 0.00 | 33.15 | 3.01 |
874 | 921 | 4.250464 | CCGTGGCATTTGTCTTAGACTTA | 58.750 | 43.478 | 13.86 | 1.93 | 33.15 | 2.24 |
875 | 922 | 4.693566 | CCGTGGCATTTGTCTTAGACTTAA | 59.306 | 41.667 | 13.86 | 8.21 | 33.15 | 1.85 |
876 | 923 | 5.180492 | CCGTGGCATTTGTCTTAGACTTAAA | 59.820 | 40.000 | 13.86 | 7.08 | 33.15 | 1.52 |
877 | 924 | 6.077838 | CGTGGCATTTGTCTTAGACTTAAAC | 58.922 | 40.000 | 13.86 | 5.21 | 33.15 | 2.01 |
878 | 925 | 6.077838 | GTGGCATTTGTCTTAGACTTAAACG | 58.922 | 40.000 | 13.86 | 0.86 | 33.15 | 3.60 |
879 | 926 | 5.761234 | TGGCATTTGTCTTAGACTTAAACGT | 59.239 | 36.000 | 13.86 | 0.00 | 33.15 | 3.99 |
880 | 927 | 6.930164 | TGGCATTTGTCTTAGACTTAAACGTA | 59.070 | 34.615 | 13.86 | 0.00 | 33.15 | 3.57 |
881 | 928 | 7.604927 | TGGCATTTGTCTTAGACTTAAACGTAT | 59.395 | 33.333 | 13.86 | 0.00 | 33.15 | 3.06 |
1067 | 1115 | 3.391382 | GGGGCTGCTGTACGACCT | 61.391 | 66.667 | 0.00 | 0.00 | 0.00 | 3.85 |
1193 | 1241 | 4.443266 | GCCGCCAGCGACTCTCTT | 62.443 | 66.667 | 14.67 | 0.00 | 42.83 | 2.85 |
1527 | 1778 | 5.879237 | ACAATAGGTTCAAACATGTATGCG | 58.121 | 37.500 | 0.00 | 0.00 | 0.00 | 4.73 |
1549 | 1800 | 1.343142 | TGTAGCGCTGAAAGGAACAGA | 59.657 | 47.619 | 22.90 | 0.00 | 37.54 | 3.41 |
1666 | 1936 | 1.032014 | TTTGCAAGGTTCTGTGGCTC | 58.968 | 50.000 | 0.00 | 0.00 | 0.00 | 4.70 |
1835 | 2115 | 4.822685 | TGAACATTGGCATTATGGCTTT | 57.177 | 36.364 | 19.22 | 7.58 | 44.10 | 3.51 |
1879 | 2159 | 7.592533 | GCATTATAGGTTCAAACATGTATGCAG | 59.407 | 37.037 | 13.99 | 0.00 | 34.89 | 4.41 |
1881 | 2161 | 8.574251 | TTATAGGTTCAAACATGTATGCAGTT | 57.426 | 30.769 | 0.00 | 0.00 | 0.00 | 3.16 |
1882 | 2162 | 5.789643 | AGGTTCAAACATGTATGCAGTTT | 57.210 | 34.783 | 0.00 | 0.00 | 36.00 | 2.66 |
1884 | 2164 | 7.283625 | AGGTTCAAACATGTATGCAGTTTAA | 57.716 | 32.000 | 0.00 | 0.00 | 34.03 | 1.52 |
1886 | 2166 | 6.920758 | GGTTCAAACATGTATGCAGTTTAACA | 59.079 | 34.615 | 0.00 | 0.00 | 34.03 | 2.41 |
1949 | 2229 | 1.062488 | ACTCCAGCCCTTCCTTGTGT | 61.062 | 55.000 | 0.00 | 0.00 | 0.00 | 3.72 |
1950 | 2230 | 0.984230 | CTCCAGCCCTTCCTTGTGTA | 59.016 | 55.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1951 | 2231 | 0.690762 | TCCAGCCCTTCCTTGTGTAC | 59.309 | 55.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1952 | 2232 | 0.400213 | CCAGCCCTTCCTTGTGTACA | 59.600 | 55.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1953 | 2233 | 1.611673 | CCAGCCCTTCCTTGTGTACAG | 60.612 | 57.143 | 0.00 | 0.00 | 0.00 | 2.74 |
1954 | 2234 | 1.072331 | CAGCCCTTCCTTGTGTACAGT | 59.928 | 52.381 | 0.00 | 0.00 | 0.00 | 3.55 |
1955 | 2235 | 2.301870 | CAGCCCTTCCTTGTGTACAGTA | 59.698 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
1971 | 2252 | 2.291153 | ACAGTAACTTGGATGCCTGCAT | 60.291 | 45.455 | 3.90 | 3.90 | 39.69 | 3.96 |
2088 | 2375 | 7.386851 | TGAACTTAGTTCTTCCTCCATTGTAG | 58.613 | 38.462 | 23.27 | 0.00 | 42.39 | 2.74 |
2207 | 2545 | 3.403038 | ACAAAAATACGCAGCAGAGTCT | 58.597 | 40.909 | 0.00 | 0.00 | 0.00 | 3.24 |
2221 | 2559 | 2.551459 | CAGAGTCTTGCTGTTTCCCTTG | 59.449 | 50.000 | 0.00 | 0.00 | 0.00 | 3.61 |
2267 | 2606 | 1.197721 | GTGGAGTTTGAACATCGGCAG | 59.802 | 52.381 | 0.00 | 0.00 | 0.00 | 4.85 |
2310 | 2649 | 6.183360 | CCATTGCTTGCATTACTTTGATTGAC | 60.183 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
2398 | 2738 | 4.115199 | GGGCATGAGGGCGAAGGT | 62.115 | 66.667 | 0.00 | 0.00 | 44.56 | 3.50 |
2429 | 2769 | 7.454225 | AGGAAAAATATATAGCCTCTGTCCAC | 58.546 | 38.462 | 0.00 | 0.00 | 0.00 | 4.02 |
2570 | 4695 | 0.537143 | TTGCGGCTGGTTCTGTCATT | 60.537 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2583 | 4709 | 5.946377 | GGTTCTGTCATTGAGGTAATTTCCT | 59.054 | 40.000 | 2.81 | 2.81 | 40.97 | 3.36 |
2645 | 4771 | 1.508088 | CAGCAATTCTGGTTCCGCC | 59.492 | 57.895 | 0.00 | 0.00 | 39.15 | 6.13 |
2723 | 4852 | 0.673022 | CTGGTGAGCTGAGTTCTGCC | 60.673 | 60.000 | 0.00 | 1.17 | 41.03 | 4.85 |
3015 | 5432 | 7.875041 | CCTGACCTAGGTATCAACAAGATATTG | 59.125 | 40.741 | 16.29 | 0.00 | 41.10 | 1.90 |
3107 | 5524 | 2.813754 | TCTTTTCAGTGCACAGGTATGC | 59.186 | 45.455 | 21.04 | 0.00 | 46.32 | 3.14 |
3333 | 5792 | 4.776435 | TGAATGGATGTAGGATGCTGAA | 57.224 | 40.909 | 0.00 | 0.00 | 0.00 | 3.02 |
3359 | 5818 | 5.230942 | CGTTTTCTTACAGTGGATCTCTGT | 58.769 | 41.667 | 20.92 | 20.92 | 46.10 | 3.41 |
3454 | 5913 | 5.300792 | AGCTCACCTTACTATAGTGCTCTTC | 59.699 | 44.000 | 15.90 | 0.00 | 0.00 | 2.87 |
3501 | 6046 | 6.149640 | GGGATTAAGTCTCCTCAGTTTTGTTC | 59.850 | 42.308 | 0.00 | 0.00 | 33.05 | 3.18 |
3508 | 6053 | 4.516698 | TCTCCTCAGTTTTGTTCATTCAGC | 59.483 | 41.667 | 0.00 | 0.00 | 0.00 | 4.26 |
4065 | 6752 | 7.203910 | CGACATATGTAAAAGTTCTAGCCTCT | 58.796 | 38.462 | 8.71 | 0.00 | 0.00 | 3.69 |
4080 | 6767 | 0.179089 | CCTCTCAGATCCAACGCTGG | 60.179 | 60.000 | 0.00 | 0.00 | 45.08 | 4.85 |
4097 | 6784 | 7.305474 | CAACGCTGGAACTTATTCTAACATTT | 58.695 | 34.615 | 0.00 | 0.00 | 34.98 | 2.32 |
4144 | 6831 | 1.887797 | ACATTATGGGACGGAGGGAA | 58.112 | 50.000 | 0.00 | 0.00 | 0.00 | 3.97 |
4207 | 6904 | 9.646336 | CCGCTTATCATTTAAGTTTACATACAC | 57.354 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
4249 | 7215 | 8.621532 | AATCTACAGATTGTGTACATGTTTGT | 57.378 | 30.769 | 2.30 | 3.75 | 42.66 | 2.83 |
4251 | 7217 | 8.445275 | TCTACAGATTGTGTACATGTTTGTTT | 57.555 | 30.769 | 2.30 | 0.00 | 40.94 | 2.83 |
4390 | 7402 | 7.845037 | TGCTCTGTAGATATGATTATGGAAGG | 58.155 | 38.462 | 0.00 | 0.00 | 0.00 | 3.46 |
4592 | 7604 | 0.981183 | TGGGTTTGACGCAGGTAGAT | 59.019 | 50.000 | 0.00 | 0.00 | 36.06 | 1.98 |
4730 | 7749 | 2.263077 | CTAGATGTGCACTGGTTCGAC | 58.737 | 52.381 | 19.41 | 0.82 | 0.00 | 4.20 |
4737 | 7759 | 1.007336 | GCACTGGTTCGACTACACCG | 61.007 | 60.000 | 0.00 | 0.00 | 35.60 | 4.94 |
4740 | 7762 | 1.808945 | ACTGGTTCGACTACACCGTAG | 59.191 | 52.381 | 0.00 | 0.00 | 35.60 | 3.51 |
4745 | 7767 | 3.873952 | GGTTCGACTACACCGTAGATACT | 59.126 | 47.826 | 8.11 | 0.00 | 0.00 | 2.12 |
4753 | 7775 | 6.493116 | ACTACACCGTAGATACTTGATTTCG | 58.507 | 40.000 | 8.11 | 0.00 | 0.00 | 3.46 |
4755 | 7777 | 6.441093 | ACACCGTAGATACTTGATTTCGTA | 57.559 | 37.500 | 0.00 | 0.00 | 0.00 | 3.43 |
4766 | 7788 | 6.500684 | ACTTGATTTCGTATTTGCATGACT | 57.499 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
4800 | 7822 | 7.719193 | TCTTCACTGAAGATATTTTGACAACCA | 59.281 | 33.333 | 16.22 | 0.00 | 42.78 | 3.67 |
4854 | 7876 | 4.270245 | TGCCAATGGAATCAAAACTTCC | 57.730 | 40.909 | 2.05 | 0.00 | 42.15 | 3.46 |
4858 | 7880 | 4.261994 | CCAATGGAATCAAAACTTCCGTGT | 60.262 | 41.667 | 0.00 | 0.00 | 44.29 | 4.49 |
4859 | 7881 | 4.766404 | ATGGAATCAAAACTTCCGTGTC | 57.234 | 40.909 | 0.00 | 0.00 | 44.29 | 3.67 |
4860 | 7882 | 3.815809 | TGGAATCAAAACTTCCGTGTCT | 58.184 | 40.909 | 0.00 | 0.00 | 44.29 | 3.41 |
4861 | 7883 | 3.813166 | TGGAATCAAAACTTCCGTGTCTC | 59.187 | 43.478 | 0.00 | 0.00 | 44.29 | 3.36 |
5001 | 8028 | 4.332819 | GCACTGCTACTAACAAAGGTATGG | 59.667 | 45.833 | 0.00 | 0.00 | 0.00 | 2.74 |
5031 | 8058 | 3.248363 | GGTTTGCAGCAAAATGACCTTTC | 59.752 | 43.478 | 22.26 | 6.47 | 35.03 | 2.62 |
5173 | 8248 | 3.957497 | TCATGCTTTGGTGTTACCTGTTT | 59.043 | 39.130 | 0.00 | 0.00 | 39.58 | 2.83 |
5459 | 8544 | 8.713971 | ACATGGAGAGTCATACAAATGGTAATA | 58.286 | 33.333 | 0.00 | 0.00 | 35.14 | 0.98 |
5463 | 8548 | 7.873505 | GGAGAGTCATACAAATGGTAATAGTCC | 59.126 | 40.741 | 0.00 | 0.00 | 35.14 | 3.85 |
5531 | 8617 | 7.036863 | TCTGTAATTTAGTTCTCATTCCCCCTT | 60.037 | 37.037 | 0.00 | 0.00 | 0.00 | 3.95 |
5532 | 8618 | 6.889722 | TGTAATTTAGTTCTCATTCCCCCTTG | 59.110 | 38.462 | 0.00 | 0.00 | 0.00 | 3.61 |
5561 | 8647 | 3.247648 | CCAGGTACGCGATGAATTAAAGG | 59.752 | 47.826 | 15.93 | 0.00 | 0.00 | 3.11 |
5620 | 8706 | 2.728922 | GTATCTTTGAGGAGTACGCCG | 58.271 | 52.381 | 10.22 | 0.00 | 0.00 | 6.46 |
5622 | 8708 | 0.963962 | TCTTTGAGGAGTACGCCGTT | 59.036 | 50.000 | 10.22 | 0.00 | 0.00 | 4.44 |
5625 | 8711 | 2.857592 | TTGAGGAGTACGCCGTTATC | 57.142 | 50.000 | 10.22 | 2.93 | 0.00 | 1.75 |
5626 | 8712 | 2.048444 | TGAGGAGTACGCCGTTATCT | 57.952 | 50.000 | 10.22 | 0.00 | 0.00 | 1.98 |
5627 | 8713 | 2.372264 | TGAGGAGTACGCCGTTATCTT | 58.628 | 47.619 | 10.22 | 0.00 | 0.00 | 2.40 |
5628 | 8714 | 2.756760 | TGAGGAGTACGCCGTTATCTTT | 59.243 | 45.455 | 10.22 | 0.00 | 0.00 | 2.52 |
5629 | 8715 | 3.114065 | GAGGAGTACGCCGTTATCTTTG | 58.886 | 50.000 | 10.22 | 0.00 | 0.00 | 2.77 |
5630 | 8716 | 2.756760 | AGGAGTACGCCGTTATCTTTGA | 59.243 | 45.455 | 10.22 | 0.00 | 0.00 | 2.69 |
5631 | 8717 | 3.114065 | GGAGTACGCCGTTATCTTTGAG | 58.886 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
5632 | 8718 | 3.114065 | GAGTACGCCGTTATCTTTGAGG | 58.886 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
5633 | 8719 | 2.756760 | AGTACGCCGTTATCTTTGAGGA | 59.243 | 45.455 | 0.00 | 0.00 | 0.00 | 3.71 |
5634 | 8720 | 2.295253 | ACGCCGTTATCTTTGAGGAG | 57.705 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
5635 | 8721 | 1.549170 | ACGCCGTTATCTTTGAGGAGT | 59.451 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
5636 | 8722 | 2.756760 | ACGCCGTTATCTTTGAGGAGTA | 59.243 | 45.455 | 0.00 | 0.00 | 33.39 | 2.59 |
5637 | 8723 | 3.114065 | CGCCGTTATCTTTGAGGAGTAC | 58.886 | 50.000 | 0.00 | 0.00 | 0.00 | 2.73 |
5638 | 8724 | 3.114065 | GCCGTTATCTTTGAGGAGTACG | 58.886 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
5639 | 8725 | 3.114065 | CCGTTATCTTTGAGGAGTACGC | 58.886 | 50.000 | 0.00 | 0.00 | 0.00 | 4.42 |
5640 | 8726 | 3.114065 | CGTTATCTTTGAGGAGTACGCC | 58.886 | 50.000 | 7.70 | 7.70 | 0.00 | 5.68 |
5641 | 8727 | 3.114065 | GTTATCTTTGAGGAGTACGCCG | 58.886 | 50.000 | 10.22 | 0.00 | 0.00 | 6.46 |
5642 | 8728 | 1.183549 | ATCTTTGAGGAGTACGCCGT | 58.816 | 50.000 | 10.22 | 0.00 | 0.00 | 5.68 |
5643 | 8729 | 0.524862 | TCTTTGAGGAGTACGCCGTC | 59.475 | 55.000 | 10.22 | 8.74 | 0.00 | 4.79 |
5648 | 8734 | 2.304092 | TGAGGAGTACGCCGTCATATT | 58.696 | 47.619 | 10.22 | 0.00 | 0.00 | 1.28 |
5649 | 8735 | 2.034179 | TGAGGAGTACGCCGTCATATTG | 59.966 | 50.000 | 10.22 | 0.00 | 0.00 | 1.90 |
5725 | 8814 | 2.359531 | GGTCTGACCTCCGACTAATGAG | 59.640 | 54.545 | 19.53 | 0.00 | 34.73 | 2.90 |
5733 | 8822 | 3.589988 | CTCCGACTAATGAGTTGTGCTT | 58.410 | 45.455 | 0.00 | 0.00 | 35.45 | 3.91 |
5768 | 8857 | 1.833630 | TGGATCGCTCTGTTCCAGATT | 59.166 | 47.619 | 0.00 | 0.00 | 40.72 | 2.40 |
5848 | 8937 | 1.136891 | AGTTGCAGCTTTCAAACCACC | 59.863 | 47.619 | 0.00 | 0.00 | 0.00 | 4.61 |
5906 | 8996 | 9.003658 | GTTATAATGAAGCACCATAATGTAGCT | 57.996 | 33.333 | 0.00 | 0.00 | 37.08 | 3.32 |
5912 | 9002 | 6.038603 | TGAAGCACCATAATGTAGCTCAATTC | 59.961 | 38.462 | 0.00 | 0.00 | 33.83 | 2.17 |
6014 | 9112 | 2.353803 | GCAGTCCGTACTTGATGAACCT | 60.354 | 50.000 | 0.00 | 0.00 | 31.97 | 3.50 |
6050 | 9148 | 6.126568 | TGTGATCAATGCTTCATGTGTATG | 57.873 | 37.500 | 0.00 | 0.00 | 35.57 | 2.39 |
6089 | 9187 | 8.789762 | TGCCTATCAACTTTTAAACTCTTAACC | 58.210 | 33.333 | 0.00 | 0.00 | 0.00 | 2.85 |
6090 | 9188 | 9.011095 | GCCTATCAACTTTTAAACTCTTAACCT | 57.989 | 33.333 | 0.00 | 0.00 | 0.00 | 3.50 |
6123 | 9221 | 7.711846 | AGAACATACAGAGTTATACAGCTCAG | 58.288 | 38.462 | 0.00 | 0.00 | 34.63 | 3.35 |
6128 | 9226 | 8.951243 | CATACAGAGTTATACAGCTCAGCTATA | 58.049 | 37.037 | 0.00 | 0.00 | 36.40 | 1.31 |
6215 | 9313 | 8.074370 | GTCCCAAAATAAGTGTCTCAACTTTAC | 58.926 | 37.037 | 0.00 | 0.00 | 40.77 | 2.01 |
6226 | 9324 | 6.905609 | GTGTCTCAACTTTACTACAACTTTGC | 59.094 | 38.462 | 0.00 | 0.00 | 0.00 | 3.68 |
6318 | 9416 | 4.220821 | GCATGGAGGCTTACTGTATAGCTA | 59.779 | 45.833 | 16.12 | 0.00 | 37.54 | 3.32 |
6344 | 9442 | 9.503399 | AAGACGATCAATAGGAAATATTAACCC | 57.497 | 33.333 | 7.66 | 1.86 | 32.61 | 4.11 |
6413 | 9512 | 2.089980 | GATGAACAGCCATGCACTTCT | 58.910 | 47.619 | 0.00 | 0.00 | 0.00 | 2.85 |
6417 | 9516 | 3.244526 | TGAACAGCCATGCACTTCTTCTA | 60.245 | 43.478 | 0.00 | 0.00 | 0.00 | 2.10 |
6496 | 9595 | 6.833416 | AGTTCAATATTTGGTATGCCAGCTTA | 59.167 | 34.615 | 1.75 | 0.00 | 46.91 | 3.09 |
6502 | 9601 | 1.134521 | TGGTATGCCAGCTTAGGTTCG | 60.135 | 52.381 | 0.00 | 0.00 | 40.46 | 3.95 |
6510 | 9609 | 3.857052 | CCAGCTTAGGTTCGAACATGTA | 58.143 | 45.455 | 28.24 | 14.13 | 0.00 | 2.29 |
6620 | 9719 | 8.383947 | AGGTTCCTCTATTTAAAGTTTGTAGCT | 58.616 | 33.333 | 0.00 | 0.00 | 0.00 | 3.32 |
6626 | 9725 | 8.597662 | TCTATTTAAAGTTTGTAGCTTGTCGT | 57.402 | 30.769 | 0.00 | 0.00 | 0.00 | 4.34 |
6638 | 9737 | 2.751259 | AGCTTGTCGTTGCATTCATCAT | 59.249 | 40.909 | 0.00 | 0.00 | 0.00 | 2.45 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
24 | 25 | 8.686739 | AGCTCTAGATTTACCCCACATAATAT | 57.313 | 34.615 | 0.00 | 0.00 | 0.00 | 1.28 |
59 | 60 | 8.243426 | TGACATGGAAGTTTTTAATGATGTAGC | 58.757 | 33.333 | 0.00 | 0.00 | 0.00 | 3.58 |
138 | 139 | 1.076332 | CCAAACGTCCATTCTCCGTC | 58.924 | 55.000 | 0.00 | 0.00 | 32.95 | 4.79 |
139 | 140 | 0.953960 | GCCAAACGTCCATTCTCCGT | 60.954 | 55.000 | 0.00 | 0.00 | 36.17 | 4.69 |
140 | 141 | 0.673644 | AGCCAAACGTCCATTCTCCG | 60.674 | 55.000 | 0.00 | 0.00 | 0.00 | 4.63 |
141 | 142 | 1.087501 | GAGCCAAACGTCCATTCTCC | 58.912 | 55.000 | 0.00 | 0.00 | 0.00 | 3.71 |
275 | 283 | 9.190858 | CATTTCAACGTTTTTCATCCTGAAATA | 57.809 | 29.630 | 15.03 | 0.00 | 44.75 | 1.40 |
315 | 323 | 2.305928 | CCGGGCCATGAATTTGTCATA | 58.694 | 47.619 | 4.39 | 0.00 | 45.69 | 2.15 |
510 | 522 | 2.729360 | CGAGCCCGGTTTTGAAAATTTC | 59.271 | 45.455 | 0.00 | 0.00 | 0.00 | 2.17 |
531 | 543 | 3.157252 | TGGAGGCCGAGCTCCATC | 61.157 | 66.667 | 8.47 | 1.88 | 44.02 | 3.51 |
767 | 804 | 3.692370 | GACACGGCCCGGGCTAAAT | 62.692 | 63.158 | 42.70 | 26.82 | 41.60 | 1.40 |
839 | 886 | 1.227853 | CCACGGCCCAACTATAGCC | 60.228 | 63.158 | 0.00 | 0.00 | 43.53 | 3.93 |
850 | 897 | 0.451783 | CTAAGACAAATGCCACGGCC | 59.548 | 55.000 | 5.42 | 0.00 | 41.09 | 6.13 |
866 | 913 | 6.071952 | ACGACCTTGGATACGTTTAAGTCTAA | 60.072 | 38.462 | 0.00 | 0.00 | 42.51 | 2.10 |
867 | 914 | 5.415701 | ACGACCTTGGATACGTTTAAGTCTA | 59.584 | 40.000 | 0.00 | 0.00 | 42.51 | 2.59 |
873 | 920 | 2.609350 | GCACGACCTTGGATACGTTTA | 58.391 | 47.619 | 0.00 | 0.00 | 42.51 | 2.01 |
874 | 921 | 1.435577 | GCACGACCTTGGATACGTTT | 58.564 | 50.000 | 0.00 | 0.00 | 42.51 | 3.60 |
875 | 922 | 0.734942 | CGCACGACCTTGGATACGTT | 60.735 | 55.000 | 0.00 | 0.00 | 42.51 | 3.99 |
876 | 923 | 1.153901 | CGCACGACCTTGGATACGT | 60.154 | 57.895 | 0.00 | 0.00 | 42.51 | 3.57 |
877 | 924 | 0.734942 | AACGCACGACCTTGGATACG | 60.735 | 55.000 | 0.00 | 0.00 | 42.51 | 3.06 |
878 | 925 | 0.719465 | CAACGCACGACCTTGGATAC | 59.281 | 55.000 | 0.00 | 0.00 | 0.00 | 2.24 |
879 | 926 | 0.319083 | ACAACGCACGACCTTGGATA | 59.681 | 50.000 | 0.00 | 0.00 | 0.00 | 2.59 |
880 | 927 | 1.070786 | ACAACGCACGACCTTGGAT | 59.929 | 52.632 | 0.00 | 0.00 | 0.00 | 3.41 |
881 | 928 | 1.885388 | CACAACGCACGACCTTGGA | 60.885 | 57.895 | 0.00 | 0.00 | 0.00 | 3.53 |
1497 | 1748 | 8.862325 | ACATGTTTGAACCTATTGTATGAAGA | 57.138 | 30.769 | 0.00 | 0.00 | 0.00 | 2.87 |
1527 | 1778 | 0.444260 | GTTCCTTTCAGCGCTACAGC | 59.556 | 55.000 | 10.99 | 0.00 | 37.78 | 4.40 |
1666 | 1936 | 8.994429 | ATCTGAAGAAACTTATGTCACACTAG | 57.006 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
1701 | 1971 | 3.575858 | CGCTACTGTGCATACATGTTC | 57.424 | 47.619 | 2.30 | 0.00 | 35.97 | 3.18 |
1757 | 2027 | 1.686115 | GGCAATGGCTTGAGTACCCAT | 60.686 | 52.381 | 0.00 | 0.00 | 40.94 | 4.00 |
1835 | 2115 | 1.815196 | CAAACAGTGGGCAGCACAA | 59.185 | 52.632 | 0.00 | 0.00 | 0.00 | 3.33 |
1879 | 2159 | 4.573607 | ACTCCGTTCCTTTCAGTGTTAAAC | 59.426 | 41.667 | 0.00 | 0.00 | 0.00 | 2.01 |
1881 | 2161 | 4.374399 | GACTCCGTTCCTTTCAGTGTTAA | 58.626 | 43.478 | 0.00 | 0.00 | 0.00 | 2.01 |
1882 | 2162 | 3.243975 | GGACTCCGTTCCTTTCAGTGTTA | 60.244 | 47.826 | 0.00 | 0.00 | 32.24 | 2.41 |
1884 | 2164 | 1.070289 | GGACTCCGTTCCTTTCAGTGT | 59.930 | 52.381 | 0.00 | 0.00 | 32.24 | 3.55 |
1886 | 2166 | 1.718280 | AGGACTCCGTTCCTTTCAGT | 58.282 | 50.000 | 0.00 | 0.00 | 44.22 | 3.41 |
1898 | 2178 | 3.055094 | TGCAGAAATACCAGAAGGACTCC | 60.055 | 47.826 | 0.00 | 0.00 | 38.69 | 3.85 |
1949 | 2229 | 2.304470 | TGCAGGCATCCAAGTTACTGTA | 59.696 | 45.455 | 0.00 | 0.00 | 0.00 | 2.74 |
1950 | 2230 | 1.073763 | TGCAGGCATCCAAGTTACTGT | 59.926 | 47.619 | 0.00 | 0.00 | 0.00 | 3.55 |
1951 | 2231 | 1.825090 | TGCAGGCATCCAAGTTACTG | 58.175 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
1952 | 2232 | 2.372264 | CATGCAGGCATCCAAGTTACT | 58.628 | 47.619 | 3.30 | 0.00 | 33.90 | 2.24 |
1953 | 2233 | 1.202336 | GCATGCAGGCATCCAAGTTAC | 60.202 | 52.381 | 20.11 | 0.00 | 33.90 | 2.50 |
1954 | 2234 | 1.105457 | GCATGCAGGCATCCAAGTTA | 58.895 | 50.000 | 20.11 | 0.00 | 33.90 | 2.24 |
1955 | 2235 | 1.895238 | GCATGCAGGCATCCAAGTT | 59.105 | 52.632 | 20.11 | 0.00 | 33.90 | 2.66 |
1971 | 2252 | 3.751175 | CAGTTCCTCTTTAAATGGACGCA | 59.249 | 43.478 | 8.93 | 0.00 | 0.00 | 5.24 |
2088 | 2375 | 7.770801 | AACAAGGAACAGAAAATACAAAAGC | 57.229 | 32.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2207 | 2545 | 4.817318 | ACTTTTTCAAGGGAAACAGCAA | 57.183 | 36.364 | 3.89 | 0.00 | 42.08 | 3.91 |
2221 | 2559 | 5.453567 | AGTGGCATCCAAGTTACTTTTTC | 57.546 | 39.130 | 0.00 | 0.00 | 34.18 | 2.29 |
2250 | 2589 | 4.025647 | GCTATACTGCCGATGTTCAAACTC | 60.026 | 45.833 | 0.00 | 0.00 | 0.00 | 3.01 |
2267 | 2606 | 3.526931 | TGGACAGCACAGAAGCTATAC | 57.473 | 47.619 | 0.00 | 0.00 | 44.54 | 1.47 |
2320 | 2659 | 6.088824 | CAGAACCTTGCAAAGTCATACAATC | 58.911 | 40.000 | 0.14 | 0.00 | 44.25 | 2.67 |
2398 | 2738 | 8.103305 | CAGAGGCTATATATTTTTCCTTGGCTA | 58.897 | 37.037 | 0.00 | 0.00 | 0.00 | 3.93 |
2429 | 2769 | 3.426117 | ATCTACGTGCTTCCGGGCG | 62.426 | 63.158 | 0.00 | 1.52 | 34.52 | 6.13 |
2507 | 2850 | 4.215399 | CCTTTGCTGAAGTAAACGGAATCA | 59.785 | 41.667 | 0.00 | 0.00 | 33.29 | 2.57 |
2645 | 4771 | 2.084610 | TTTGTCAGCACTCAGGATCG | 57.915 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
2723 | 4852 | 0.313672 | GAGGCCTGACTAGAGCGATG | 59.686 | 60.000 | 12.00 | 0.00 | 0.00 | 3.84 |
3015 | 5432 | 2.821546 | TGAACATCCCAATCGACGATC | 58.178 | 47.619 | 11.42 | 0.00 | 0.00 | 3.69 |
3269 | 5728 | 3.215975 | TGTAGGCAACAAAACTACCACC | 58.784 | 45.455 | 0.00 | 0.00 | 37.00 | 4.61 |
3333 | 5792 | 4.642429 | AGATCCACTGTAAGAAAACGCTT | 58.358 | 39.130 | 0.00 | 0.00 | 37.43 | 4.68 |
3454 | 5913 | 4.091945 | CCGATCATTGCAGGTACAATATCG | 59.908 | 45.833 | 14.81 | 14.81 | 38.19 | 2.92 |
3637 | 6182 | 9.271828 | GGTAAAACCATGATGAAACAGAAAAAT | 57.728 | 29.630 | 0.00 | 0.00 | 38.42 | 1.82 |
3908 | 6585 | 6.764308 | ACATAAGCACTGAAGTTGCATTAT | 57.236 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
4050 | 6736 | 4.780021 | TGGATCTGAGAGGCTAGAACTTTT | 59.220 | 41.667 | 0.00 | 0.00 | 0.00 | 2.27 |
4097 | 6784 | 7.013083 | AGACGTTTCTTGACACTAGACTAGAAA | 59.987 | 37.037 | 16.55 | 8.82 | 38.24 | 2.52 |
4115 | 6802 | 4.269363 | CCGTCCCATAATGTAAGACGTTTC | 59.731 | 45.833 | 9.63 | 0.00 | 46.62 | 2.78 |
4207 | 6904 | 3.535561 | AGATTCATCAGCCAAGGTAACG | 58.464 | 45.455 | 0.00 | 0.00 | 46.39 | 3.18 |
4390 | 7402 | 3.814005 | TCCGCTTCATAAGGGTAGAAC | 57.186 | 47.619 | 3.47 | 0.00 | 39.60 | 3.01 |
4671 | 7690 | 4.516698 | ACAATGCCAGTATATAGCAACAGC | 59.483 | 41.667 | 0.00 | 0.00 | 40.46 | 4.40 |
4730 | 7749 | 6.493116 | ACGAAATCAAGTATCTACGGTGTAG | 58.507 | 40.000 | 0.00 | 0.00 | 0.00 | 2.74 |
4737 | 7759 | 9.586150 | CATGCAAATACGAAATCAAGTATCTAC | 57.414 | 33.333 | 0.00 | 0.00 | 32.91 | 2.59 |
4740 | 7762 | 8.338259 | AGTCATGCAAATACGAAATCAAGTATC | 58.662 | 33.333 | 0.00 | 0.00 | 32.91 | 2.24 |
4745 | 7767 | 8.672815 | TCATTAGTCATGCAAATACGAAATCAA | 58.327 | 29.630 | 0.00 | 0.00 | 32.13 | 2.57 |
4753 | 7775 | 9.049523 | TGAAGATCTCATTAGTCATGCAAATAC | 57.950 | 33.333 | 0.00 | 0.00 | 32.13 | 1.89 |
4755 | 7777 | 7.774157 | AGTGAAGATCTCATTAGTCATGCAAAT | 59.226 | 33.333 | 0.00 | 0.00 | 36.14 | 2.32 |
4800 | 7822 | 7.122650 | AGCAATATAATACAACAAAGCCACAGT | 59.877 | 33.333 | 0.00 | 0.00 | 0.00 | 3.55 |
4854 | 7876 | 4.858140 | GCATGATCATATGAGAGAGACACG | 59.142 | 45.833 | 8.15 | 0.00 | 0.00 | 4.49 |
4858 | 7880 | 6.607004 | ACATGCATGATCATATGAGAGAGA | 57.393 | 37.500 | 32.75 | 0.00 | 0.00 | 3.10 |
4859 | 7881 | 7.100409 | AGAACATGCATGATCATATGAGAGAG | 58.900 | 38.462 | 32.75 | 0.59 | 32.67 | 3.20 |
4860 | 7882 | 7.005709 | AGAACATGCATGATCATATGAGAGA | 57.994 | 36.000 | 32.75 | 0.00 | 32.67 | 3.10 |
4861 | 7883 | 7.173390 | ACAAGAACATGCATGATCATATGAGAG | 59.827 | 37.037 | 32.75 | 12.45 | 32.67 | 3.20 |
4934 | 7961 | 3.424703 | CAATCACCCATATGATCACCCC | 58.575 | 50.000 | 3.65 | 0.00 | 38.40 | 4.95 |
5031 | 8058 | 3.441222 | TGCATGGTTCAGTGAGCTTAATG | 59.559 | 43.478 | 6.95 | 0.00 | 0.00 | 1.90 |
5037 | 8064 | 0.801251 | GAGTGCATGGTTCAGTGAGC | 59.199 | 55.000 | 0.00 | 0.00 | 0.00 | 4.26 |
5224 | 8303 | 6.918569 | GCATCGATTAGCTGAGTAGAAAGTAA | 59.081 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
5246 | 8325 | 6.064060 | TGTAGAAAGGCATAAGCATAAGCAT | 58.936 | 36.000 | 0.00 | 0.00 | 45.49 | 3.79 |
5459 | 8544 | 5.086104 | ACAGAAATAGTACATTGCGGACT | 57.914 | 39.130 | 0.00 | 0.00 | 0.00 | 3.85 |
5463 | 8548 | 9.425893 | CAAATTAGACAGAAATAGTACATTGCG | 57.574 | 33.333 | 0.00 | 0.00 | 0.00 | 4.85 |
5531 | 8617 | 2.342279 | GCGTACCTGGTCAGTGCA | 59.658 | 61.111 | 0.63 | 0.00 | 0.00 | 4.57 |
5532 | 8618 | 2.558554 | ATCGCGTACCTGGTCAGTGC | 62.559 | 60.000 | 0.63 | 2.40 | 0.00 | 4.40 |
5561 | 8647 | 1.135286 | GCTCAAAACAGGCCAGTATGC | 60.135 | 52.381 | 5.01 | 0.25 | 31.97 | 3.14 |
5620 | 8706 | 3.114065 | CGGCGTACTCCTCAAAGATAAC | 58.886 | 50.000 | 0.00 | 0.00 | 0.00 | 1.89 |
5622 | 8708 | 2.357009 | GACGGCGTACTCCTCAAAGATA | 59.643 | 50.000 | 14.74 | 0.00 | 0.00 | 1.98 |
5625 | 8711 | 0.242825 | TGACGGCGTACTCCTCAAAG | 59.757 | 55.000 | 14.74 | 0.00 | 0.00 | 2.77 |
5626 | 8712 | 0.892755 | ATGACGGCGTACTCCTCAAA | 59.107 | 50.000 | 14.74 | 0.00 | 0.00 | 2.69 |
5627 | 8713 | 1.753930 | TATGACGGCGTACTCCTCAA | 58.246 | 50.000 | 14.74 | 0.00 | 0.00 | 3.02 |
5628 | 8714 | 1.977056 | ATATGACGGCGTACTCCTCA | 58.023 | 50.000 | 14.74 | 5.80 | 0.00 | 3.86 |
5629 | 8715 | 2.292569 | TCAATATGACGGCGTACTCCTC | 59.707 | 50.000 | 14.74 | 0.00 | 0.00 | 3.71 |
5630 | 8716 | 2.293677 | CTCAATATGACGGCGTACTCCT | 59.706 | 50.000 | 14.74 | 0.00 | 0.00 | 3.69 |
5631 | 8717 | 2.607282 | CCTCAATATGACGGCGTACTCC | 60.607 | 54.545 | 14.74 | 0.00 | 0.00 | 3.85 |
5632 | 8718 | 2.034305 | ACCTCAATATGACGGCGTACTC | 59.966 | 50.000 | 14.74 | 0.18 | 0.00 | 2.59 |
5633 | 8719 | 2.029623 | ACCTCAATATGACGGCGTACT | 58.970 | 47.619 | 14.74 | 5.69 | 0.00 | 2.73 |
5634 | 8720 | 2.124903 | CACCTCAATATGACGGCGTAC | 58.875 | 52.381 | 14.74 | 7.58 | 0.00 | 3.67 |
5635 | 8721 | 2.025898 | TCACCTCAATATGACGGCGTA | 58.974 | 47.619 | 14.74 | 0.00 | 0.00 | 4.42 |
5636 | 8722 | 0.821517 | TCACCTCAATATGACGGCGT | 59.178 | 50.000 | 14.65 | 14.65 | 0.00 | 5.68 |
5637 | 8723 | 1.934589 | TTCACCTCAATATGACGGCG | 58.065 | 50.000 | 4.80 | 4.80 | 0.00 | 6.46 |
5638 | 8724 | 4.261197 | GGAAATTCACCTCAATATGACGGC | 60.261 | 45.833 | 0.00 | 0.00 | 0.00 | 5.68 |
5639 | 8725 | 5.126067 | AGGAAATTCACCTCAATATGACGG | 58.874 | 41.667 | 0.00 | 0.00 | 31.43 | 4.79 |
5725 | 8814 | 6.968904 | CCACATCTCATACATAAAAGCACAAC | 59.031 | 38.462 | 0.00 | 0.00 | 0.00 | 3.32 |
5733 | 8822 | 6.015095 | AGAGCGATCCACATCTCATACATAAA | 60.015 | 38.462 | 0.00 | 0.00 | 0.00 | 1.40 |
5768 | 8857 | 1.673920 | GTCAAGTTTCCCAGCAAACGA | 59.326 | 47.619 | 0.00 | 0.00 | 40.60 | 3.85 |
5823 | 8912 | 1.761449 | TTGAAAGCTGCAACTGTGGA | 58.239 | 45.000 | 1.02 | 0.00 | 0.00 | 4.02 |
5906 | 8996 | 7.285858 | TGAACATGCATTCATCTATGGAATTGA | 59.714 | 33.333 | 0.00 | 0.00 | 33.62 | 2.57 |
5912 | 9002 | 4.512571 | TCGTGAACATGCATTCATCTATGG | 59.487 | 41.667 | 6.05 | 0.00 | 40.60 | 2.74 |
5996 | 9094 | 5.684550 | AAAAAGGTTCATCAAGTACGGAC | 57.315 | 39.130 | 0.00 | 0.00 | 0.00 | 4.79 |
6050 | 9148 | 4.342862 | TGATAGGCACCTCAGAATAAGC | 57.657 | 45.455 | 0.00 | 0.00 | 0.00 | 3.09 |
6215 | 9313 | 6.787085 | ACTAGCTTTAGTGCAAAGTTGTAG | 57.213 | 37.500 | 0.00 | 0.00 | 44.73 | 2.74 |
6226 | 9324 | 8.488764 | GTCTCAAACTTTGTACTAGCTTTAGTG | 58.511 | 37.037 | 0.00 | 0.00 | 0.00 | 2.74 |
6245 | 9343 | 4.517453 | CCGTCCCAAAATAAGTGTCTCAAA | 59.483 | 41.667 | 0.00 | 0.00 | 0.00 | 2.69 |
6318 | 9416 | 9.503399 | GGGTTAATATTTCCTATTGATCGTCTT | 57.497 | 33.333 | 0.00 | 0.00 | 32.26 | 3.01 |
6344 | 9442 | 0.107017 | ATTCAAGGGCTCCACCATCG | 60.107 | 55.000 | 0.00 | 0.00 | 42.05 | 3.84 |
6413 | 9512 | 7.726216 | TCAAAACATCAGACTCAGAACTAGAA | 58.274 | 34.615 | 0.00 | 0.00 | 0.00 | 2.10 |
6417 | 9516 | 5.923204 | ACTCAAAACATCAGACTCAGAACT | 58.077 | 37.500 | 0.00 | 0.00 | 0.00 | 3.01 |
6496 | 9595 | 4.345859 | TGGTTTCTACATGTTCGAACCT | 57.654 | 40.909 | 24.78 | 13.13 | 0.00 | 3.50 |
6502 | 9601 | 7.805071 | CACAAGAATCTTGGTTTCTACATGTTC | 59.195 | 37.037 | 24.77 | 0.00 | 33.17 | 3.18 |
6510 | 9609 | 5.376625 | TGTAGCACAAGAATCTTGGTTTCT | 58.623 | 37.500 | 24.77 | 16.96 | 34.95 | 2.52 |
6620 | 9719 | 6.622833 | ATGATATGATGAATGCAACGACAA | 57.377 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.