Multiple sequence alignment - TraesCS7D01G518200
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 | TraesCS7D01G518200 | chr7D | 100.000 | 2537 | 0 | 0 | 1 | 2537 | 616907220 | 616909756 | 0.000000e+00 | 4686.0 |
1 | TraesCS7D01G518200 | chr7D | 84.306 | 720 | 85 | 20 | 836 | 1532 | 617117114 | 617116400 | 0.000000e+00 | 678.0 |
2 | TraesCS7D01G518200 | chr7D | 100.000 | 57 | 0 | 0 | 2481 | 2537 | 616917852 | 616917796 | 3.450000e-19 | 106.0 |
3 | TraesCS7D01G518200 | chr7D | 100.000 | 57 | 0 | 0 | 2481 | 2537 | 616924274 | 616924218 | 3.450000e-19 | 106.0 |
4 | TraesCS7D01G518200 | chr7D | 100.000 | 56 | 0 | 0 | 2482 | 2537 | 506148425 | 506148370 | 1.240000e-18 | 104.0 |
5 | TraesCS7D01G518200 | chr7A | 89.658 | 2195 | 158 | 24 | 320 | 2482 | 709673814 | 709675971 | 0.000000e+00 | 2732.0 |
6 | TraesCS7D01G518200 | chr7A | 85.237 | 718 | 76 | 19 | 836 | 1532 | 709999024 | 709998316 | 0.000000e+00 | 712.0 |
7 | TraesCS7D01G518200 | chr7A | 88.636 | 220 | 21 | 4 | 51 | 269 | 709673417 | 709673633 | 5.380000e-67 | 265.0 |
8 | TraesCS7D01G518200 | chr7B | 95.951 | 568 | 20 | 2 | 1092 | 1658 | 711000738 | 711001303 | 0.000000e+00 | 918.0 |
9 | TraesCS7D01G518200 | chr7B | 85.926 | 810 | 89 | 15 | 272 | 1069 | 710999958 | 711000754 | 0.000000e+00 | 841.0 |
10 | TraesCS7D01G518200 | chr7B | 88.411 | 535 | 58 | 4 | 1829 | 2361 | 48883011 | 48882479 | 2.130000e-180 | 641.0 |
11 | TraesCS7D01G518200 | chr7B | 89.520 | 458 | 42 | 4 | 1081 | 1532 | 711485321 | 711484864 | 2.190000e-160 | 575.0 |
12 | TraesCS7D01G518200 | chr7B | 86.598 | 97 | 5 | 3 | 1663 | 1758 | 711001337 | 711001426 | 1.610000e-17 | 100.0 |
13 | TraesCS7D01G518200 | chr7B | 89.552 | 67 | 7 | 0 | 2416 | 2482 | 711003437 | 711003503 | 4.500000e-13 | 86.1 |
14 | TraesCS7D01G518200 | chr5D | 89.493 | 533 | 54 | 2 | 1830 | 2361 | 11436457 | 11436988 | 0.000000e+00 | 673.0 |
15 | TraesCS7D01G518200 | chr5D | 98.333 | 60 | 1 | 0 | 2478 | 2537 | 4804592 | 4804651 | 3.450000e-19 | 106.0 |
16 | TraesCS7D01G518200 | chr3D | 87.828 | 534 | 65 | 0 | 1828 | 2361 | 275950150 | 275949617 | 5.960000e-176 | 627.0 |
17 | TraesCS7D01G518200 | chr3D | 100.000 | 58 | 0 | 0 | 2480 | 2537 | 434262330 | 434262387 | 9.600000e-20 | 108.0 |
18 | TraesCS7D01G518200 | chr6B | 87.594 | 532 | 63 | 3 | 1831 | 2361 | 457224001 | 457224530 | 4.640000e-172 | 614.0 |
19 | TraesCS7D01G518200 | chr6B | 85.289 | 537 | 69 | 7 | 1829 | 2361 | 631805201 | 631805731 | 1.720000e-151 | 545.0 |
20 | TraesCS7D01G518200 | chrUn | 85.981 | 535 | 71 | 3 | 1830 | 2361 | 68460503 | 68461036 | 1.020000e-158 | 569.0 |
21 | TraesCS7D01G518200 | chrUn | 98.246 | 57 | 1 | 0 | 2481 | 2537 | 27469051 | 27468995 | 1.610000e-17 | 100.0 |
22 | TraesCS7D01G518200 | chr5B | 85.952 | 541 | 64 | 11 | 1829 | 2361 | 591244003 | 591244539 | 3.660000e-158 | 568.0 |
23 | TraesCS7D01G518200 | chr4D | 83.148 | 540 | 77 | 11 | 1830 | 2361 | 113415528 | 113416061 | 4.910000e-132 | 481.0 |
24 | TraesCS7D01G518200 | chr4D | 96.667 | 60 | 1 | 1 | 2476 | 2534 | 49894164 | 49894223 | 5.780000e-17 | 99.0 |
25 | TraesCS7D01G518200 | chr1A | 77.033 | 209 | 44 | 4 | 1211 | 1417 | 503376942 | 503376736 | 1.590000e-22 | 117.0 |
26 | TraesCS7D01G518200 | chr1D | 75.862 | 232 | 49 | 6 | 1211 | 1437 | 407878359 | 407878130 | 7.420000e-21 | 111.0 |
27 | TraesCS7D01G518200 | chr1B | 76.555 | 209 | 45 | 4 | 1211 | 1417 | 548541158 | 548540952 | 7.420000e-21 | 111.0 |
28 | TraesCS7D01G518200 | chr2D | 95.312 | 64 | 2 | 1 | 2475 | 2537 | 586571334 | 586571271 | 1.610000e-17 | 100.0 |
29 | TraesCS7D01G518200 | chr4B | 96.610 | 59 | 2 | 0 | 2479 | 2537 | 17381224 | 17381282 | 5.780000e-17 | 99.0 |
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 | TraesCS7D01G518200 | chr7D | 616907220 | 616909756 | 2536 | False | 4686.000 | 4686 | 100.00000 | 1 | 2537 | 1 | chr7D.!!$F1 | 2536 |
1 | TraesCS7D01G518200 | chr7D | 617116400 | 617117114 | 714 | True | 678.000 | 678 | 84.30600 | 836 | 1532 | 1 | chr7D.!!$R4 | 696 |
2 | TraesCS7D01G518200 | chr7A | 709673417 | 709675971 | 2554 | False | 1498.500 | 2732 | 89.14700 | 51 | 2482 | 2 | chr7A.!!$F1 | 2431 |
3 | TraesCS7D01G518200 | chr7A | 709998316 | 709999024 | 708 | True | 712.000 | 712 | 85.23700 | 836 | 1532 | 1 | chr7A.!!$R1 | 696 |
4 | TraesCS7D01G518200 | chr7B | 48882479 | 48883011 | 532 | True | 641.000 | 641 | 88.41100 | 1829 | 2361 | 1 | chr7B.!!$R1 | 532 |
5 | TraesCS7D01G518200 | chr7B | 710999958 | 711003503 | 3545 | False | 486.275 | 918 | 89.50675 | 272 | 2482 | 4 | chr7B.!!$F1 | 2210 |
6 | TraesCS7D01G518200 | chr5D | 11436457 | 11436988 | 531 | False | 673.000 | 673 | 89.49300 | 1830 | 2361 | 1 | chr5D.!!$F2 | 531 |
7 | TraesCS7D01G518200 | chr3D | 275949617 | 275950150 | 533 | True | 627.000 | 627 | 87.82800 | 1828 | 2361 | 1 | chr3D.!!$R1 | 533 |
8 | TraesCS7D01G518200 | chr6B | 457224001 | 457224530 | 529 | False | 614.000 | 614 | 87.59400 | 1831 | 2361 | 1 | chr6B.!!$F1 | 530 |
9 | TraesCS7D01G518200 | chr6B | 631805201 | 631805731 | 530 | False | 545.000 | 545 | 85.28900 | 1829 | 2361 | 1 | chr6B.!!$F2 | 532 |
10 | TraesCS7D01G518200 | chrUn | 68460503 | 68461036 | 533 | False | 569.000 | 569 | 85.98100 | 1830 | 2361 | 1 | chrUn.!!$F1 | 531 |
11 | TraesCS7D01G518200 | chr5B | 591244003 | 591244539 | 536 | False | 568.000 | 568 | 85.95200 | 1829 | 2361 | 1 | chr5B.!!$F1 | 532 |
12 | TraesCS7D01G518200 | chr4D | 113415528 | 113416061 | 533 | False | 481.000 | 481 | 83.14800 | 1830 | 2361 | 1 | chr4D.!!$F2 | 531 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
215 | 216 | 0.179081 | GTTGGGTCGATAGGACTGGC | 60.179 | 60.0 | 0.0 | 0.0 | 45.35 | 4.85 | F |
407 | 538 | 0.325296 | AATCCGCCCTCTAGTCCACA | 60.325 | 55.0 | 0.0 | 0.0 | 0.00 | 4.17 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1107 | 1277 | 0.178973 | TCTTGGAGTGGACGTGGAGA | 60.179 | 55.0 | 0.0 | 0.0 | 0.0 | 3.71 | R |
2160 | 2394 | 0.404040 | GGGTGGTTGGATCTGGTGAA | 59.596 | 55.0 | 0.0 | 0.0 | 0.0 | 3.18 | 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 |
---|---|---|---|---|---|---|---|---|---|
26 | 27 | 3.021177 | AGGGTCAGACCTAGAGTTAGC | 57.979 | 52.381 | 19.57 | 0.00 | 39.65 | 3.09 |
27 | 28 | 2.312140 | AGGGTCAGACCTAGAGTTAGCA | 59.688 | 50.000 | 19.57 | 0.00 | 39.65 | 3.49 |
28 | 29 | 3.097614 | GGGTCAGACCTAGAGTTAGCAA | 58.902 | 50.000 | 19.57 | 0.00 | 38.64 | 3.91 |
29 | 30 | 3.514309 | GGGTCAGACCTAGAGTTAGCAAA | 59.486 | 47.826 | 19.57 | 0.00 | 38.64 | 3.68 |
30 | 31 | 4.382147 | GGGTCAGACCTAGAGTTAGCAAAG | 60.382 | 50.000 | 19.57 | 0.00 | 38.64 | 2.77 |
31 | 32 | 4.177783 | GTCAGACCTAGAGTTAGCAAAGC | 58.822 | 47.826 | 0.00 | 0.00 | 0.00 | 3.51 |
32 | 33 | 3.119459 | TCAGACCTAGAGTTAGCAAAGCG | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 4.68 |
33 | 34 | 2.826725 | AGACCTAGAGTTAGCAAAGCGT | 59.173 | 45.455 | 0.00 | 0.00 | 0.00 | 5.07 |
34 | 35 | 4.015084 | AGACCTAGAGTTAGCAAAGCGTA | 58.985 | 43.478 | 0.00 | 0.00 | 0.00 | 4.42 |
35 | 36 | 4.461781 | AGACCTAGAGTTAGCAAAGCGTAA | 59.538 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
36 | 37 | 5.047519 | AGACCTAGAGTTAGCAAAGCGTAAA | 60.048 | 40.000 | 0.00 | 0.00 | 0.00 | 2.01 |
37 | 38 | 5.731591 | ACCTAGAGTTAGCAAAGCGTAAAT | 58.268 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
38 | 39 | 6.171213 | ACCTAGAGTTAGCAAAGCGTAAATT | 58.829 | 36.000 | 0.00 | 0.00 | 0.00 | 1.82 |
39 | 40 | 7.325694 | ACCTAGAGTTAGCAAAGCGTAAATTA | 58.674 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
40 | 41 | 7.820872 | ACCTAGAGTTAGCAAAGCGTAAATTAA | 59.179 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
41 | 42 | 8.328864 | CCTAGAGTTAGCAAAGCGTAAATTAAG | 58.671 | 37.037 | 0.00 | 0.00 | 0.00 | 1.85 |
42 | 43 | 7.900782 | AGAGTTAGCAAAGCGTAAATTAAGA | 57.099 | 32.000 | 0.00 | 0.00 | 0.00 | 2.10 |
43 | 44 | 8.319143 | AGAGTTAGCAAAGCGTAAATTAAGAA | 57.681 | 30.769 | 0.00 | 0.00 | 0.00 | 2.52 |
44 | 45 | 8.228464 | AGAGTTAGCAAAGCGTAAATTAAGAAC | 58.772 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
45 | 46 | 8.095937 | AGTTAGCAAAGCGTAAATTAAGAACT | 57.904 | 30.769 | 0.00 | 0.00 | 0.00 | 3.01 |
46 | 47 | 8.565416 | AGTTAGCAAAGCGTAAATTAAGAACTT | 58.435 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
47 | 48 | 8.627428 | GTTAGCAAAGCGTAAATTAAGAACTTG | 58.373 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
48 | 49 | 6.966021 | AGCAAAGCGTAAATTAAGAACTTGA | 58.034 | 32.000 | 0.00 | 0.00 | 0.00 | 3.02 |
49 | 50 | 7.422399 | AGCAAAGCGTAAATTAAGAACTTGAA | 58.578 | 30.769 | 0.00 | 0.00 | 0.00 | 2.69 |
53 | 54 | 7.130303 | AGCGTAAATTAAGAACTTGAACCTC | 57.870 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
56 | 57 | 8.715088 | GCGTAAATTAAGAACTTGAACCTCTAA | 58.285 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
67 | 68 | 4.778213 | TGAACCTCTAATGGGATCAAGG | 57.222 | 45.455 | 0.00 | 0.00 | 0.00 | 3.61 |
79 | 80 | 1.680207 | GGATCAAGGCATTCCTCTTGC | 59.320 | 52.381 | 0.00 | 0.00 | 43.40 | 4.01 |
81 | 82 | 1.138247 | CAAGGCATTCCTCTTGCGC | 59.862 | 57.895 | 0.00 | 0.00 | 43.40 | 6.09 |
118 | 119 | 1.286248 | TTCAAGACCCCTAAGGCTCC | 58.714 | 55.000 | 0.00 | 0.00 | 40.58 | 4.70 |
132 | 133 | 4.900154 | CTCCGTGGAGCTCAAGAC | 57.100 | 61.111 | 17.19 | 7.83 | 35.31 | 3.01 |
135 | 136 | 1.216710 | CCGTGGAGCTCAAGACCTC | 59.783 | 63.158 | 17.19 | 0.00 | 0.00 | 3.85 |
151 | 152 | 6.098982 | TCAAGACCTCCATCTCTTAGGATTTC | 59.901 | 42.308 | 0.00 | 0.00 | 34.34 | 2.17 |
154 | 155 | 3.007398 | CCTCCATCTCTTAGGATTTCGGG | 59.993 | 52.174 | 0.00 | 0.00 | 32.53 | 5.14 |
157 | 158 | 5.651303 | TCCATCTCTTAGGATTTCGGGATA | 58.349 | 41.667 | 0.00 | 0.00 | 0.00 | 2.59 |
158 | 159 | 6.082031 | TCCATCTCTTAGGATTTCGGGATAA | 58.918 | 40.000 | 0.00 | 0.00 | 0.00 | 1.75 |
188 | 189 | 1.614317 | CGCTTGTCCCTTTCTCCCATT | 60.614 | 52.381 | 0.00 | 0.00 | 0.00 | 3.16 |
189 | 190 | 2.529632 | GCTTGTCCCTTTCTCCCATTT | 58.470 | 47.619 | 0.00 | 0.00 | 0.00 | 2.32 |
201 | 202 | 1.812571 | CTCCCATTTCGAGTTGTTGGG | 59.187 | 52.381 | 11.75 | 11.75 | 46.99 | 4.12 |
207 | 208 | 3.663995 | TTTCGAGTTGTTGGGTCGATA | 57.336 | 42.857 | 0.00 | 0.00 | 42.01 | 2.92 |
212 | 213 | 2.496470 | GAGTTGTTGGGTCGATAGGACT | 59.504 | 50.000 | 0.00 | 0.00 | 45.35 | 3.85 |
215 | 216 | 0.179081 | GTTGGGTCGATAGGACTGGC | 60.179 | 60.000 | 0.00 | 0.00 | 45.35 | 4.85 |
247 | 248 | 8.561738 | AACTTTATTCGTGAGATGTATGGTTT | 57.438 | 30.769 | 0.00 | 0.00 | 41.60 | 3.27 |
248 | 249 | 9.661563 | AACTTTATTCGTGAGATGTATGGTTTA | 57.338 | 29.630 | 0.00 | 0.00 | 41.60 | 2.01 |
265 | 266 | 4.019321 | TGGTTTACTTGAGGCTCTTATGCT | 60.019 | 41.667 | 16.72 | 0.00 | 0.00 | 3.79 |
269 | 270 | 6.791867 | TTACTTGAGGCTCTTATGCTTCTA | 57.208 | 37.500 | 16.72 | 0.00 | 39.39 | 2.10 |
270 | 271 | 5.885449 | ACTTGAGGCTCTTATGCTTCTAT | 57.115 | 39.130 | 16.72 | 0.00 | 39.39 | 1.98 |
284 | 285 | 3.820467 | TGCTTCTATTTGTGTCCTTGTGG | 59.180 | 43.478 | 0.00 | 0.00 | 0.00 | 4.17 |
306 | 307 | 4.320275 | GGTTGTTTGTGTTTAGCCTCTAGC | 60.320 | 45.833 | 0.00 | 0.00 | 44.25 | 3.42 |
318 | 319 | 3.726291 | GCCTCTAGCTCTTAGGTCTTG | 57.274 | 52.381 | 9.86 | 0.00 | 38.99 | 3.02 |
331 | 462 | 3.146104 | AGGTCTTGGTGTTCTTCATGG | 57.854 | 47.619 | 0.00 | 0.00 | 0.00 | 3.66 |
337 | 468 | 3.593442 | TGGTGTTCTTCATGGTTCCTT | 57.407 | 42.857 | 0.00 | 0.00 | 0.00 | 3.36 |
338 | 469 | 4.715534 | TGGTGTTCTTCATGGTTCCTTA | 57.284 | 40.909 | 0.00 | 0.00 | 0.00 | 2.69 |
343 | 474 | 5.710099 | GTGTTCTTCATGGTTCCTTATCCAA | 59.290 | 40.000 | 0.00 | 0.00 | 37.27 | 3.53 |
348 | 479 | 6.953520 | TCTTCATGGTTCCTTATCCAATTTGT | 59.046 | 34.615 | 0.00 | 0.00 | 37.27 | 2.83 |
365 | 496 | 9.265862 | TCCAATTTGTAAATATCCATCAAACCT | 57.734 | 29.630 | 0.00 | 0.00 | 32.25 | 3.50 |
366 | 497 | 9.316730 | CCAATTTGTAAATATCCATCAAACCTG | 57.683 | 33.333 | 0.00 | 0.00 | 32.25 | 4.00 |
372 | 503 | 8.682710 | TGTAAATATCCATCAAACCTGCTAAAC | 58.317 | 33.333 | 0.00 | 0.00 | 0.00 | 2.01 |
376 | 507 | 3.938963 | TCCATCAAACCTGCTAAACGATC | 59.061 | 43.478 | 0.00 | 0.00 | 0.00 | 3.69 |
377 | 508 | 3.065371 | CCATCAAACCTGCTAAACGATCC | 59.935 | 47.826 | 0.00 | 0.00 | 0.00 | 3.36 |
386 | 517 | 2.049228 | GCTAAACGATCCGTATCACCG | 58.951 | 52.381 | 0.00 | 0.00 | 39.99 | 4.94 |
389 | 520 | 3.781079 | AAACGATCCGTATCACCGTAA | 57.219 | 42.857 | 0.00 | 0.00 | 39.99 | 3.18 |
404 | 535 | 0.597072 | CGTAATCCGCCCTCTAGTCC | 59.403 | 60.000 | 0.00 | 0.00 | 0.00 | 3.85 |
406 | 537 | 1.340568 | GTAATCCGCCCTCTAGTCCAC | 59.659 | 57.143 | 0.00 | 0.00 | 0.00 | 4.02 |
407 | 538 | 0.325296 | AATCCGCCCTCTAGTCCACA | 60.325 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
411 | 542 | 0.457851 | CGCCCTCTAGTCCACAAGAG | 59.542 | 60.000 | 0.00 | 0.00 | 39.19 | 2.85 |
429 | 560 | 2.107726 | AGAGTTTTGTTGGACTACCCCC | 59.892 | 50.000 | 0.00 | 0.00 | 34.81 | 5.40 |
430 | 561 | 1.202842 | AGTTTTGTTGGACTACCCCCG | 60.203 | 52.381 | 0.00 | 0.00 | 34.81 | 5.73 |
431 | 562 | 1.138568 | TTTTGTTGGACTACCCCCGA | 58.861 | 50.000 | 0.00 | 0.00 | 34.81 | 5.14 |
432 | 563 | 1.138568 | TTTGTTGGACTACCCCCGAA | 58.861 | 50.000 | 0.00 | 0.00 | 34.81 | 4.30 |
433 | 564 | 1.364269 | TTGTTGGACTACCCCCGAAT | 58.636 | 50.000 | 0.00 | 0.00 | 34.81 | 3.34 |
434 | 565 | 2.250921 | TGTTGGACTACCCCCGAATA | 57.749 | 50.000 | 0.00 | 0.00 | 34.81 | 1.75 |
435 | 566 | 2.112998 | TGTTGGACTACCCCCGAATAG | 58.887 | 52.381 | 0.00 | 0.00 | 34.81 | 1.73 |
436 | 567 | 2.292389 | TGTTGGACTACCCCCGAATAGA | 60.292 | 50.000 | 0.00 | 0.00 | 34.81 | 1.98 |
437 | 568 | 2.970640 | GTTGGACTACCCCCGAATAGAT | 59.029 | 50.000 | 0.00 | 0.00 | 34.81 | 1.98 |
438 | 569 | 2.605257 | TGGACTACCCCCGAATAGATG | 58.395 | 52.381 | 0.00 | 0.00 | 34.81 | 2.90 |
439 | 570 | 2.178325 | TGGACTACCCCCGAATAGATGA | 59.822 | 50.000 | 0.00 | 0.00 | 34.81 | 2.92 |
440 | 571 | 2.561858 | GGACTACCCCCGAATAGATGAC | 59.438 | 54.545 | 0.00 | 0.00 | 0.00 | 3.06 |
441 | 572 | 2.561858 | GACTACCCCCGAATAGATGACC | 59.438 | 54.545 | 0.00 | 0.00 | 0.00 | 4.02 |
442 | 573 | 2.179424 | ACTACCCCCGAATAGATGACCT | 59.821 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
443 | 574 | 3.400322 | ACTACCCCCGAATAGATGACCTA | 59.600 | 47.826 | 0.00 | 0.00 | 0.00 | 3.08 |
444 | 575 | 3.562108 | ACCCCCGAATAGATGACCTAT | 57.438 | 47.619 | 0.00 | 0.00 | 39.70 | 2.57 |
487 | 633 | 5.449177 | GGCCTAAATCTTGTTTTGATCTCCG | 60.449 | 44.000 | 0.00 | 0.00 | 0.00 | 4.63 |
494 | 640 | 3.896648 | TGTTTTGATCTCCGCTCAAAC | 57.103 | 42.857 | 0.00 | 0.00 | 41.10 | 2.93 |
511 | 657 | 0.607489 | AACAATGGCGCTCAAGCTCT | 60.607 | 50.000 | 7.64 | 0.00 | 39.32 | 4.09 |
534 | 680 | 3.059884 | CCACTGTGTGCCGATATGATAC | 58.940 | 50.000 | 7.08 | 0.00 | 31.34 | 2.24 |
537 | 683 | 0.708370 | GTGTGCCGATATGATACGCG | 59.292 | 55.000 | 3.53 | 3.53 | 0.00 | 6.01 |
542 | 688 | 1.629013 | CCGATATGATACGCGTGCAT | 58.371 | 50.000 | 24.59 | 25.15 | 0.00 | 3.96 |
544 | 690 | 1.321445 | CGATATGATACGCGTGCATGG | 59.679 | 52.381 | 28.41 | 18.09 | 0.00 | 3.66 |
545 | 691 | 2.337583 | GATATGATACGCGTGCATGGT | 58.662 | 47.619 | 28.41 | 20.34 | 0.00 | 3.55 |
549 | 695 | 3.967393 | ATACGCGTGCATGGTGGCA | 62.967 | 57.895 | 24.59 | 0.00 | 42.53 | 4.92 |
567 | 713 | 1.747355 | GCAATGGTTCATGGAGGAGTG | 59.253 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
588 | 734 | 3.127533 | GAGATGGGTGGCGTGTGC | 61.128 | 66.667 | 0.00 | 0.00 | 41.71 | 4.57 |
598 | 744 | 2.672996 | GCGTGTGCCAAGGTCCAT | 60.673 | 61.111 | 0.00 | 0.00 | 33.98 | 3.41 |
660 | 806 | 2.690778 | GCATCGGTTCAGGTGGTGC | 61.691 | 63.158 | 0.00 | 0.00 | 0.00 | 5.01 |
664 | 810 | 2.110213 | GGTTCAGGTGGTGCGACA | 59.890 | 61.111 | 0.00 | 0.00 | 0.00 | 4.35 |
679 | 825 | 2.805277 | GACAACGTCGGTGGTACAG | 58.195 | 57.895 | 15.94 | 0.00 | 41.80 | 2.74 |
680 | 826 | 0.665369 | GACAACGTCGGTGGTACAGG | 60.665 | 60.000 | 15.94 | 0.00 | 41.80 | 4.00 |
681 | 827 | 2.025418 | CAACGTCGGTGGTACAGGC | 61.025 | 63.158 | 1.18 | 0.00 | 41.80 | 4.85 |
682 | 828 | 2.500714 | AACGTCGGTGGTACAGGCA | 61.501 | 57.895 | 0.00 | 0.00 | 41.80 | 4.75 |
683 | 829 | 2.431942 | CGTCGGTGGTACAGGCAC | 60.432 | 66.667 | 0.00 | 0.00 | 41.80 | 5.01 |
684 | 830 | 2.431942 | GTCGGTGGTACAGGCACG | 60.432 | 66.667 | 0.00 | 0.00 | 41.80 | 5.34 |
685 | 831 | 4.367023 | TCGGTGGTACAGGCACGC | 62.367 | 66.667 | 0.00 | 0.00 | 41.80 | 5.34 |
749 | 895 | 6.289482 | TCCCTCTCAGTAATATTCCCTACA | 57.711 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
754 | 900 | 6.143915 | TCTCAGTAATATTCCCTACAGGCTT | 58.856 | 40.000 | 0.00 | 0.00 | 34.51 | 4.35 |
755 | 901 | 6.615726 | TCTCAGTAATATTCCCTACAGGCTTT | 59.384 | 38.462 | 0.00 | 0.00 | 34.51 | 3.51 |
782 | 928 | 4.451900 | TCCTCTGGAAAAAGGCGAATATC | 58.548 | 43.478 | 0.00 | 0.00 | 32.37 | 1.63 |
812 | 958 | 1.272769 | GTCGGTTGCTACTTCTGGTCT | 59.727 | 52.381 | 0.00 | 0.00 | 0.00 | 3.85 |
883 | 1035 | 4.705023 | TCTCATCATGTCGACACCTTTCTA | 59.295 | 41.667 | 22.71 | 1.91 | 0.00 | 2.10 |
953 | 1107 | 2.669569 | GCGTCTCCAAGCCAAGCA | 60.670 | 61.111 | 0.00 | 0.00 | 0.00 | 3.91 |
1056 | 1226 | 2.576832 | GCAGGTTGCTTGCACCCAT | 61.577 | 57.895 | 11.60 | 0.00 | 40.96 | 4.00 |
1098 | 1268 | 3.174987 | CACCACCTCCCCCACACA | 61.175 | 66.667 | 0.00 | 0.00 | 0.00 | 3.72 |
1107 | 1277 | 2.595095 | CCCCACACACACACCTGT | 59.405 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
1437 | 1610 | 2.437895 | GGCGCCTTCCCTTACCAC | 60.438 | 66.667 | 22.15 | 0.00 | 0.00 | 4.16 |
1596 | 1782 | 0.978146 | AGGTAGTGGGCTAGTGCTGG | 60.978 | 60.000 | 0.00 | 0.00 | 39.59 | 4.85 |
1599 | 1785 | 0.687757 | TAGTGGGCTAGTGCTGGAGG | 60.688 | 60.000 | 0.00 | 0.00 | 39.59 | 4.30 |
1685 | 1901 | 8.490355 | GCAAGTTGATCAAAACTTTAGATTTGG | 58.510 | 33.333 | 10.35 | 0.00 | 45.84 | 3.28 |
1709 | 1925 | 4.003648 | GTCCCACATGGTTTAGTCTTCAG | 58.996 | 47.826 | 0.00 | 0.00 | 34.77 | 3.02 |
1710 | 1926 | 3.650942 | TCCCACATGGTTTAGTCTTCAGT | 59.349 | 43.478 | 0.00 | 0.00 | 34.77 | 3.41 |
1711 | 1927 | 4.841813 | TCCCACATGGTTTAGTCTTCAGTA | 59.158 | 41.667 | 0.00 | 0.00 | 34.77 | 2.74 |
1712 | 1928 | 5.046591 | TCCCACATGGTTTAGTCTTCAGTAG | 60.047 | 44.000 | 0.00 | 0.00 | 34.77 | 2.57 |
1713 | 1929 | 5.046591 | CCCACATGGTTTAGTCTTCAGTAGA | 60.047 | 44.000 | 0.00 | 0.00 | 0.00 | 2.59 |
1714 | 1930 | 6.352222 | CCCACATGGTTTAGTCTTCAGTAGAT | 60.352 | 42.308 | 0.00 | 0.00 | 34.79 | 1.98 |
1760 | 1976 | 4.969484 | TCACTCTGGTTCTTTTTACTCCC | 58.031 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
1764 | 1980 | 5.162980 | ACTCTGGTTCTTTTTACTCCCCATT | 60.163 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1770 | 1986 | 8.769359 | TGGTTCTTTTTACTCCCCATTTAAAAA | 58.231 | 29.630 | 0.00 | 0.00 | 34.86 | 1.94 |
1801 | 2017 | 9.796120 | TCTGAAATCAAACTTCGTAAATTTTGT | 57.204 | 25.926 | 0.00 | 0.00 | 36.75 | 2.83 |
1913 | 2141 | 3.941188 | CACACACCCGGCCTCTGT | 61.941 | 66.667 | 0.00 | 0.00 | 0.00 | 3.41 |
1947 | 2175 | 2.618241 | CACACAGCTAACACCAACACAT | 59.382 | 45.455 | 0.00 | 0.00 | 0.00 | 3.21 |
2066 | 2300 | 5.698832 | TGATCGGCAAACTAAAACAATGAG | 58.301 | 37.500 | 0.00 | 0.00 | 0.00 | 2.90 |
2104 | 2338 | 2.038659 | TCTCATGACACCACACAGACA | 58.961 | 47.619 | 0.00 | 0.00 | 0.00 | 3.41 |
2160 | 2394 | 4.170292 | GAGCAACACTCAAGCATCATTT | 57.830 | 40.909 | 0.00 | 0.00 | 45.49 | 2.32 |
2179 | 2414 | 0.404040 | TTCACCAGATCCAACCACCC | 59.596 | 55.000 | 0.00 | 0.00 | 0.00 | 4.61 |
2225 | 2460 | 5.469421 | CCCTGAAGAATCAATCTGAGCATAC | 59.531 | 44.000 | 0.00 | 0.00 | 38.79 | 2.39 |
2341 | 2776 | 1.134965 | GCGACCTGATGCTTGAGTAGT | 60.135 | 52.381 | 0.00 | 0.00 | 0.00 | 2.73 |
2348 | 4190 | 4.343526 | CCTGATGCTTGAGTAGTACCATCT | 59.656 | 45.833 | 13.97 | 0.00 | 32.48 | 2.90 |
2363 | 4205 | 7.246171 | AGTACCATCTAAGTCATCAAGTTGT | 57.754 | 36.000 | 2.11 | 0.00 | 0.00 | 3.32 |
2364 | 4206 | 7.099764 | AGTACCATCTAAGTCATCAAGTTGTG | 58.900 | 38.462 | 2.11 | 1.21 | 0.00 | 3.33 |
2368 | 4210 | 7.050377 | CCATCTAAGTCATCAAGTTGTGGTAT | 58.950 | 38.462 | 2.11 | 0.00 | 0.00 | 2.73 |
2376 | 4218 | 6.595326 | GTCATCAAGTTGTGGTATCATCAAGA | 59.405 | 38.462 | 2.11 | 0.00 | 0.00 | 3.02 |
2405 | 4247 | 8.867112 | TTACAATTACGACTATAAGCCAGAAG | 57.133 | 34.615 | 0.00 | 0.00 | 0.00 | 2.85 |
2411 | 4253 | 9.862371 | ATTACGACTATAAGCCAGAAGATAATG | 57.138 | 33.333 | 0.00 | 0.00 | 0.00 | 1.90 |
2464 | 4306 | 7.134362 | AGAGCCAGAAGATAATCTCAAATCA | 57.866 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2482 | 4324 | 4.741239 | GGCAGGACAGGGGAGGGA | 62.741 | 72.222 | 0.00 | 0.00 | 0.00 | 4.20 |
2483 | 4325 | 3.086600 | GCAGGACAGGGGAGGGAG | 61.087 | 72.222 | 0.00 | 0.00 | 0.00 | 4.30 |
2484 | 4326 | 2.780693 | CAGGACAGGGGAGGGAGA | 59.219 | 66.667 | 0.00 | 0.00 | 0.00 | 3.71 |
2485 | 4327 | 1.316266 | CAGGACAGGGGAGGGAGAT | 59.684 | 63.158 | 0.00 | 0.00 | 0.00 | 2.75 |
2486 | 4328 | 0.563173 | CAGGACAGGGGAGGGAGATA | 59.437 | 60.000 | 0.00 | 0.00 | 0.00 | 1.98 |
2487 | 4329 | 1.062121 | CAGGACAGGGGAGGGAGATAA | 60.062 | 57.143 | 0.00 | 0.00 | 0.00 | 1.75 |
2488 | 4330 | 1.657162 | AGGACAGGGGAGGGAGATAAA | 59.343 | 52.381 | 0.00 | 0.00 | 0.00 | 1.40 |
2489 | 4331 | 2.254023 | AGGACAGGGGAGGGAGATAAAT | 59.746 | 50.000 | 0.00 | 0.00 | 0.00 | 1.40 |
2490 | 4332 | 3.056832 | GGACAGGGGAGGGAGATAAATT | 58.943 | 50.000 | 0.00 | 0.00 | 0.00 | 1.82 |
2491 | 4333 | 3.073209 | GGACAGGGGAGGGAGATAAATTC | 59.927 | 52.174 | 0.00 | 0.00 | 0.00 | 2.17 |
2492 | 4334 | 3.716872 | GACAGGGGAGGGAGATAAATTCA | 59.283 | 47.826 | 0.00 | 0.00 | 0.00 | 2.57 |
2493 | 4335 | 3.459969 | ACAGGGGAGGGAGATAAATTCAC | 59.540 | 47.826 | 0.00 | 0.00 | 0.00 | 3.18 |
2494 | 4336 | 3.056832 | AGGGGAGGGAGATAAATTCACC | 58.943 | 50.000 | 0.00 | 0.00 | 34.56 | 4.02 |
2498 | 4340 | 1.226746 | GGGAGATAAATTCACCCGCG | 58.773 | 55.000 | 0.00 | 0.00 | 44.17 | 6.46 |
2499 | 4341 | 1.226746 | GGAGATAAATTCACCCGCGG | 58.773 | 55.000 | 21.04 | 21.04 | 0.00 | 6.46 |
2500 | 4342 | 1.474498 | GGAGATAAATTCACCCGCGGT | 60.474 | 52.381 | 26.12 | 9.63 | 35.62 | 5.68 |
2501 | 4343 | 1.865340 | GAGATAAATTCACCCGCGGTC | 59.135 | 52.381 | 26.12 | 11.59 | 31.02 | 4.79 |
2502 | 4344 | 1.208535 | AGATAAATTCACCCGCGGTCA | 59.791 | 47.619 | 26.12 | 3.75 | 31.02 | 4.02 |
2503 | 4345 | 1.329599 | GATAAATTCACCCGCGGTCAC | 59.670 | 52.381 | 26.12 | 0.00 | 31.02 | 3.67 |
2504 | 4346 | 0.322322 | TAAATTCACCCGCGGTCACT | 59.678 | 50.000 | 26.12 | 1.00 | 31.02 | 3.41 |
2505 | 4347 | 1.234615 | AAATTCACCCGCGGTCACTG | 61.235 | 55.000 | 26.12 | 13.35 | 31.02 | 3.66 |
2506 | 4348 | 2.391724 | AATTCACCCGCGGTCACTGT | 62.392 | 55.000 | 26.12 | 11.69 | 31.02 | 3.55 |
2507 | 4349 | 1.537814 | ATTCACCCGCGGTCACTGTA | 61.538 | 55.000 | 26.12 | 7.71 | 31.02 | 2.74 |
2508 | 4350 | 1.537814 | TTCACCCGCGGTCACTGTAT | 61.538 | 55.000 | 26.12 | 0.00 | 31.02 | 2.29 |
2509 | 4351 | 1.079405 | CACCCGCGGTCACTGTATT | 60.079 | 57.895 | 26.12 | 0.00 | 31.02 | 1.89 |
2510 | 4352 | 0.672401 | CACCCGCGGTCACTGTATTT | 60.672 | 55.000 | 26.12 | 0.00 | 31.02 | 1.40 |
2511 | 4353 | 0.672401 | ACCCGCGGTCACTGTATTTG | 60.672 | 55.000 | 26.12 | 6.21 | 0.00 | 2.32 |
2512 | 4354 | 0.390603 | CCCGCGGTCACTGTATTTGA | 60.391 | 55.000 | 26.12 | 0.00 | 0.00 | 2.69 |
2513 | 4355 | 1.651987 | CCGCGGTCACTGTATTTGAT | 58.348 | 50.000 | 19.50 | 0.00 | 0.00 | 2.57 |
2514 | 4356 | 1.593006 | CCGCGGTCACTGTATTTGATC | 59.407 | 52.381 | 19.50 | 0.00 | 0.00 | 2.92 |
2515 | 4357 | 2.267426 | CGCGGTCACTGTATTTGATCA | 58.733 | 47.619 | 0.00 | 0.00 | 0.00 | 2.92 |
2516 | 4358 | 2.029244 | CGCGGTCACTGTATTTGATCAC | 59.971 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
2517 | 4359 | 3.000041 | GCGGTCACTGTATTTGATCACA | 59.000 | 45.455 | 0.00 | 0.00 | 0.00 | 3.58 |
2518 | 4360 | 3.435327 | GCGGTCACTGTATTTGATCACAA | 59.565 | 43.478 | 0.00 | 0.00 | 0.00 | 3.33 |
2520 | 4362 | 5.621422 | CGGTCACTGTATTTGATCACAAAG | 58.379 | 41.667 | 0.00 | 0.00 | 46.84 | 2.77 |
2521 | 4363 | 5.179368 | CGGTCACTGTATTTGATCACAAAGT | 59.821 | 40.000 | 0.00 | 0.00 | 46.84 | 2.66 |
2522 | 4364 | 6.293407 | CGGTCACTGTATTTGATCACAAAGTT | 60.293 | 38.462 | 0.00 | 0.00 | 46.84 | 2.66 |
2523 | 4365 | 7.078228 | GGTCACTGTATTTGATCACAAAGTTC | 58.922 | 38.462 | 0.00 | 0.00 | 46.84 | 3.01 |
2524 | 4366 | 7.255104 | GGTCACTGTATTTGATCACAAAGTTCA | 60.255 | 37.037 | 0.00 | 0.00 | 46.84 | 3.18 |
2525 | 4367 | 7.587757 | GTCACTGTATTTGATCACAAAGTTCAC | 59.412 | 37.037 | 0.00 | 0.00 | 46.84 | 3.18 |
2526 | 4368 | 7.498900 | TCACTGTATTTGATCACAAAGTTCACT | 59.501 | 33.333 | 0.00 | 0.00 | 46.84 | 3.41 |
2527 | 4369 | 8.131100 | CACTGTATTTGATCACAAAGTTCACTT | 58.869 | 33.333 | 0.00 | 0.00 | 46.84 | 3.16 |
2528 | 4370 | 8.686334 | ACTGTATTTGATCACAAAGTTCACTTT | 58.314 | 29.630 | 0.00 | 0.00 | 46.84 | 2.66 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
5 | 6 | 3.526430 | TGCTAACTCTAGGTCTGACCCTA | 59.474 | 47.826 | 22.81 | 13.12 | 39.75 | 3.53 |
6 | 7 | 2.312140 | TGCTAACTCTAGGTCTGACCCT | 59.688 | 50.000 | 22.81 | 12.69 | 39.75 | 4.34 |
7 | 8 | 2.736347 | TGCTAACTCTAGGTCTGACCC | 58.264 | 52.381 | 22.81 | 5.74 | 39.75 | 4.46 |
8 | 9 | 4.749976 | CTTTGCTAACTCTAGGTCTGACC | 58.250 | 47.826 | 19.20 | 19.20 | 38.99 | 4.02 |
9 | 10 | 4.177783 | GCTTTGCTAACTCTAGGTCTGAC | 58.822 | 47.826 | 0.00 | 0.00 | 0.00 | 3.51 |
10 | 11 | 3.119459 | CGCTTTGCTAACTCTAGGTCTGA | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 3.27 |
11 | 12 | 3.182967 | CGCTTTGCTAACTCTAGGTCTG | 58.817 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
12 | 13 | 2.826725 | ACGCTTTGCTAACTCTAGGTCT | 59.173 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
13 | 14 | 3.233684 | ACGCTTTGCTAACTCTAGGTC | 57.766 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
14 | 15 | 4.796038 | TTACGCTTTGCTAACTCTAGGT | 57.204 | 40.909 | 0.00 | 0.00 | 0.00 | 3.08 |
15 | 16 | 6.663944 | AATTTACGCTTTGCTAACTCTAGG | 57.336 | 37.500 | 0.00 | 0.00 | 0.00 | 3.02 |
16 | 17 | 9.084164 | TCTTAATTTACGCTTTGCTAACTCTAG | 57.916 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
17 | 18 | 8.991243 | TCTTAATTTACGCTTTGCTAACTCTA | 57.009 | 30.769 | 0.00 | 0.00 | 0.00 | 2.43 |
18 | 19 | 7.900782 | TCTTAATTTACGCTTTGCTAACTCT | 57.099 | 32.000 | 0.00 | 0.00 | 0.00 | 3.24 |
19 | 20 | 8.228464 | AGTTCTTAATTTACGCTTTGCTAACTC | 58.772 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
20 | 21 | 8.095937 | AGTTCTTAATTTACGCTTTGCTAACT | 57.904 | 30.769 | 0.00 | 0.00 | 0.00 | 2.24 |
21 | 22 | 8.627428 | CAAGTTCTTAATTTACGCTTTGCTAAC | 58.373 | 33.333 | 0.00 | 0.00 | 0.00 | 2.34 |
22 | 23 | 8.561212 | TCAAGTTCTTAATTTACGCTTTGCTAA | 58.439 | 29.630 | 0.00 | 0.00 | 0.00 | 3.09 |
23 | 24 | 8.090250 | TCAAGTTCTTAATTTACGCTTTGCTA | 57.910 | 30.769 | 0.00 | 0.00 | 0.00 | 3.49 |
24 | 25 | 6.966021 | TCAAGTTCTTAATTTACGCTTTGCT | 58.034 | 32.000 | 0.00 | 0.00 | 0.00 | 3.91 |
25 | 26 | 7.358105 | GGTTCAAGTTCTTAATTTACGCTTTGC | 60.358 | 37.037 | 0.00 | 0.00 | 0.00 | 3.68 |
26 | 27 | 7.860872 | AGGTTCAAGTTCTTAATTTACGCTTTG | 59.139 | 33.333 | 0.00 | 0.00 | 0.00 | 2.77 |
27 | 28 | 7.937649 | AGGTTCAAGTTCTTAATTTACGCTTT | 58.062 | 30.769 | 0.00 | 0.00 | 0.00 | 3.51 |
28 | 29 | 7.444487 | AGAGGTTCAAGTTCTTAATTTACGCTT | 59.556 | 33.333 | 0.00 | 0.00 | 0.00 | 4.68 |
29 | 30 | 6.935208 | AGAGGTTCAAGTTCTTAATTTACGCT | 59.065 | 34.615 | 0.00 | 0.00 | 0.00 | 5.07 |
30 | 31 | 7.130303 | AGAGGTTCAAGTTCTTAATTTACGC | 57.870 | 36.000 | 0.00 | 0.00 | 0.00 | 4.42 |
34 | 35 | 9.025041 | CCCATTAGAGGTTCAAGTTCTTAATTT | 57.975 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
35 | 36 | 8.390921 | TCCCATTAGAGGTTCAAGTTCTTAATT | 58.609 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
36 | 37 | 7.928873 | TCCCATTAGAGGTTCAAGTTCTTAAT | 58.071 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
37 | 38 | 7.324388 | TCCCATTAGAGGTTCAAGTTCTTAA | 57.676 | 36.000 | 0.00 | 0.00 | 0.00 | 1.85 |
38 | 39 | 6.945636 | TCCCATTAGAGGTTCAAGTTCTTA | 57.054 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
39 | 40 | 5.843019 | TCCCATTAGAGGTTCAAGTTCTT | 57.157 | 39.130 | 0.00 | 0.00 | 0.00 | 2.52 |
40 | 41 | 5.488919 | TGATCCCATTAGAGGTTCAAGTTCT | 59.511 | 40.000 | 0.00 | 0.00 | 31.62 | 3.01 |
41 | 42 | 5.745227 | TGATCCCATTAGAGGTTCAAGTTC | 58.255 | 41.667 | 0.00 | 0.00 | 31.62 | 3.01 |
42 | 43 | 5.779241 | TGATCCCATTAGAGGTTCAAGTT | 57.221 | 39.130 | 0.00 | 0.00 | 31.62 | 2.66 |
43 | 44 | 5.749462 | CTTGATCCCATTAGAGGTTCAAGT | 58.251 | 41.667 | 16.98 | 0.00 | 46.69 | 3.16 |
45 | 46 | 4.628715 | GCCTTGATCCCATTAGAGGTTCAA | 60.629 | 45.833 | 0.00 | 0.00 | 39.60 | 2.69 |
46 | 47 | 3.117888 | GCCTTGATCCCATTAGAGGTTCA | 60.118 | 47.826 | 0.00 | 0.00 | 32.49 | 3.18 |
47 | 48 | 3.117888 | TGCCTTGATCCCATTAGAGGTTC | 60.118 | 47.826 | 0.00 | 0.00 | 0.00 | 3.62 |
48 | 49 | 2.852449 | TGCCTTGATCCCATTAGAGGTT | 59.148 | 45.455 | 0.00 | 0.00 | 0.00 | 3.50 |
49 | 50 | 2.492025 | TGCCTTGATCCCATTAGAGGT | 58.508 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
53 | 54 | 4.109877 | AGGAATGCCTTGATCCCATTAG | 57.890 | 45.455 | 0.00 | 0.00 | 43.90 | 1.73 |
67 | 68 | 3.895025 | TCTGCGCAAGAGGAATGC | 58.105 | 55.556 | 13.05 | 0.00 | 43.02 | 3.56 |
79 | 80 | 3.742433 | ATTTCATAGGAGTCCTCTGCG | 57.258 | 47.619 | 17.09 | 2.74 | 37.11 | 5.18 |
81 | 82 | 6.760770 | GTCTTGAATTTCATAGGAGTCCTCTG | 59.239 | 42.308 | 17.09 | 16.84 | 34.61 | 3.35 |
118 | 119 | 1.216710 | GGAGGTCTTGAGCTCCACG | 59.783 | 63.158 | 31.91 | 0.00 | 36.11 | 4.94 |
132 | 133 | 3.007398 | CCCGAAATCCTAAGAGATGGAGG | 59.993 | 52.174 | 0.00 | 0.00 | 35.63 | 4.30 |
135 | 136 | 4.899352 | ATCCCGAAATCCTAAGAGATGG | 57.101 | 45.455 | 0.00 | 0.00 | 0.00 | 3.51 |
154 | 155 | 6.465084 | AGGGACAAGCGTAGGATAATTTATC | 58.535 | 40.000 | 7.73 | 7.73 | 34.42 | 1.75 |
157 | 158 | 4.772886 | AGGGACAAGCGTAGGATAATTT | 57.227 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
158 | 159 | 4.772886 | AAGGGACAAGCGTAGGATAATT | 57.227 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
167 | 168 | 1.375326 | GGGAGAAAGGGACAAGCGT | 59.625 | 57.895 | 0.00 | 0.00 | 0.00 | 5.07 |
169 | 170 | 2.222227 | AATGGGAGAAAGGGACAAGC | 57.778 | 50.000 | 0.00 | 0.00 | 0.00 | 4.01 |
170 | 171 | 2.749621 | CGAAATGGGAGAAAGGGACAAG | 59.250 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
172 | 173 | 1.982226 | TCGAAATGGGAGAAAGGGACA | 59.018 | 47.619 | 0.00 | 0.00 | 0.00 | 4.02 |
173 | 174 | 2.027100 | ACTCGAAATGGGAGAAAGGGAC | 60.027 | 50.000 | 0.00 | 0.00 | 35.49 | 4.46 |
174 | 175 | 2.266279 | ACTCGAAATGGGAGAAAGGGA | 58.734 | 47.619 | 0.00 | 0.00 | 35.49 | 4.20 |
175 | 176 | 2.749621 | CAACTCGAAATGGGAGAAAGGG | 59.250 | 50.000 | 0.00 | 0.00 | 35.49 | 3.95 |
188 | 189 | 2.094390 | CCTATCGACCCAACAACTCGAA | 60.094 | 50.000 | 0.00 | 0.00 | 39.71 | 3.71 |
189 | 190 | 1.475280 | CCTATCGACCCAACAACTCGA | 59.525 | 52.381 | 0.00 | 0.00 | 40.51 | 4.04 |
201 | 202 | 0.674534 | ATTCGGCCAGTCCTATCGAC | 59.325 | 55.000 | 2.24 | 0.00 | 42.32 | 4.20 |
207 | 208 | 3.434940 | AAAGTTTATTCGGCCAGTCCT | 57.565 | 42.857 | 2.24 | 0.00 | 0.00 | 3.85 |
247 | 248 | 6.985653 | ATAGAAGCATAAGAGCCTCAAGTA | 57.014 | 37.500 | 0.00 | 0.00 | 34.23 | 2.24 |
248 | 249 | 5.885449 | ATAGAAGCATAAGAGCCTCAAGT | 57.115 | 39.130 | 0.00 | 0.00 | 34.23 | 3.16 |
265 | 266 | 5.197451 | ACAACCACAAGGACACAAATAGAA | 58.803 | 37.500 | 0.00 | 0.00 | 38.69 | 2.10 |
269 | 270 | 4.020662 | ACAAACAACCACAAGGACACAAAT | 60.021 | 37.500 | 0.00 | 0.00 | 38.69 | 2.32 |
270 | 271 | 3.322254 | ACAAACAACCACAAGGACACAAA | 59.678 | 39.130 | 0.00 | 0.00 | 38.69 | 2.83 |
284 | 285 | 4.784329 | GCTAGAGGCTAAACACAAACAAC | 58.216 | 43.478 | 0.00 | 0.00 | 38.06 | 3.32 |
306 | 307 | 5.215252 | TGAAGAACACCAAGACCTAAGAG | 57.785 | 43.478 | 0.00 | 0.00 | 0.00 | 2.85 |
318 | 319 | 4.640647 | GGATAAGGAACCATGAAGAACACC | 59.359 | 45.833 | 0.00 | 0.00 | 0.00 | 4.16 |
343 | 474 | 8.310122 | AGCAGGTTTGATGGATATTTACAAAT | 57.690 | 30.769 | 0.00 | 0.00 | 34.02 | 2.32 |
348 | 479 | 7.771361 | TCGTTTAGCAGGTTTGATGGATATTTA | 59.229 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
365 | 496 | 2.542205 | CGGTGATACGGATCGTTTAGCA | 60.542 | 50.000 | 2.51 | 0.00 | 41.54 | 3.49 |
366 | 497 | 2.049228 | CGGTGATACGGATCGTTTAGC | 58.951 | 52.381 | 2.51 | 0.00 | 41.54 | 3.09 |
372 | 503 | 2.726989 | CGGATTACGGTGATACGGATCG | 60.727 | 54.545 | 9.48 | 0.00 | 39.42 | 3.69 |
376 | 507 | 0.665369 | GGCGGATTACGGTGATACGG | 60.665 | 60.000 | 17.75 | 1.96 | 44.51 | 4.02 |
377 | 508 | 0.665369 | GGGCGGATTACGGTGATACG | 60.665 | 60.000 | 12.69 | 12.69 | 44.51 | 3.06 |
386 | 517 | 1.340568 | GTGGACTAGAGGGCGGATTAC | 59.659 | 57.143 | 0.00 | 0.00 | 0.00 | 1.89 |
389 | 520 | 0.325296 | TTGTGGACTAGAGGGCGGAT | 60.325 | 55.000 | 0.00 | 0.00 | 0.00 | 4.18 |
404 | 535 | 4.036380 | GGGTAGTCCAACAAAACTCTTGTG | 59.964 | 45.833 | 0.00 | 0.00 | 35.00 | 3.33 |
406 | 537 | 3.568430 | GGGGTAGTCCAACAAAACTCTTG | 59.432 | 47.826 | 0.00 | 0.00 | 37.22 | 3.02 |
407 | 538 | 3.436035 | GGGGGTAGTCCAACAAAACTCTT | 60.436 | 47.826 | 0.00 | 0.00 | 37.22 | 2.85 |
411 | 542 | 1.202794 | TCGGGGGTAGTCCAACAAAAC | 60.203 | 52.381 | 0.00 | 0.00 | 37.22 | 2.43 |
467 | 598 | 6.422776 | GAGCGGAGATCAAAACAAGATTTA | 57.577 | 37.500 | 0.00 | 0.00 | 45.47 | 1.40 |
487 | 633 | 0.039256 | TTGAGCGCCATTGTTTGAGC | 60.039 | 50.000 | 2.29 | 0.00 | 0.00 | 4.26 |
534 | 680 | 4.118995 | ATTGCCACCATGCACGCG | 62.119 | 61.111 | 3.53 | 3.53 | 41.88 | 6.01 |
537 | 683 | 0.390209 | GAACCATTGCCACCATGCAC | 60.390 | 55.000 | 0.00 | 0.00 | 41.88 | 4.57 |
542 | 688 | 0.113972 | TCCATGAACCATTGCCACCA | 59.886 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
544 | 690 | 0.819582 | CCTCCATGAACCATTGCCAC | 59.180 | 55.000 | 0.00 | 0.00 | 0.00 | 5.01 |
545 | 691 | 0.703488 | TCCTCCATGAACCATTGCCA | 59.297 | 50.000 | 0.00 | 0.00 | 0.00 | 4.92 |
549 | 695 | 2.291153 | CCACACTCCTCCATGAACCATT | 60.291 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
567 | 713 | 3.717294 | ACGCCACCCATCTCCCAC | 61.717 | 66.667 | 0.00 | 0.00 | 0.00 | 4.61 |
640 | 786 | 0.888736 | CACCACCTGAACCGATGCAA | 60.889 | 55.000 | 0.00 | 0.00 | 0.00 | 4.08 |
664 | 810 | 2.341176 | GCCTGTACCACCGACGTT | 59.659 | 61.111 | 0.00 | 0.00 | 0.00 | 3.99 |
714 | 860 | 4.366267 | ACTGAGAGGGAGGTGATAAATGT | 58.634 | 43.478 | 0.00 | 0.00 | 0.00 | 2.71 |
782 | 928 | 7.221067 | CAGAAGTAGCAACCGACTTTTATCTAG | 59.779 | 40.741 | 0.00 | 0.00 | 37.09 | 2.43 |
889 | 1041 | 2.986842 | TGCGTGCAATTTTCGTTTTG | 57.013 | 40.000 | 0.00 | 0.00 | 0.00 | 2.44 |
897 | 1049 | 1.067749 | TGCTGCTTGCGTGCAATTT | 59.932 | 47.368 | 7.85 | 0.00 | 46.63 | 1.82 |
1047 | 1217 | 1.075836 | GGTGTGGGTATGGGTGCAA | 59.924 | 57.895 | 0.00 | 0.00 | 0.00 | 4.08 |
1056 | 1226 | 2.840576 | GGGTTGCAGGTGTGGGTA | 59.159 | 61.111 | 0.00 | 0.00 | 0.00 | 3.69 |
1107 | 1277 | 0.178973 | TCTTGGAGTGGACGTGGAGA | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 3.71 |
1377 | 1550 | 3.685214 | GACGTCGACGAGCAGGCAT | 62.685 | 63.158 | 41.52 | 18.88 | 43.02 | 4.40 |
1544 | 1723 | 7.627298 | AATATTCTCCATTGCATAGATCTGC | 57.373 | 36.000 | 5.18 | 2.31 | 42.62 | 4.26 |
1596 | 1782 | 1.002624 | TTCCATGTCAACCGCCCTC | 60.003 | 57.895 | 0.00 | 0.00 | 0.00 | 4.30 |
1599 | 1785 | 1.002624 | TCCTTCCATGTCAACCGCC | 60.003 | 57.895 | 0.00 | 0.00 | 0.00 | 6.13 |
1685 | 1901 | 1.084289 | GACTAAACCATGTGGGACGC | 58.916 | 55.000 | 3.77 | 0.00 | 41.15 | 5.19 |
1709 | 1925 | 7.148222 | ACACACTCACAGTACATCTACATCTAC | 60.148 | 40.741 | 0.00 | 0.00 | 0.00 | 2.59 |
1710 | 1926 | 6.884836 | ACACACTCACAGTACATCTACATCTA | 59.115 | 38.462 | 0.00 | 0.00 | 0.00 | 1.98 |
1711 | 1927 | 5.712446 | ACACACTCACAGTACATCTACATCT | 59.288 | 40.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1712 | 1928 | 5.955488 | ACACACTCACAGTACATCTACATC | 58.045 | 41.667 | 0.00 | 0.00 | 0.00 | 3.06 |
1713 | 1929 | 5.984695 | ACACACTCACAGTACATCTACAT | 57.015 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
1714 | 1930 | 6.002082 | AGTACACACTCACAGTACATCTACA | 58.998 | 40.000 | 0.00 | 0.00 | 40.32 | 2.74 |
1740 | 1956 | 3.720002 | TGGGGAGTAAAAAGAACCAGAGT | 59.280 | 43.478 | 0.00 | 0.00 | 0.00 | 3.24 |
1913 | 2141 | 8.826710 | GTGTTAGCTGTGTGCATTCTATTTATA | 58.173 | 33.333 | 0.00 | 0.00 | 45.94 | 0.98 |
2023 | 2256 | 3.453717 | TCATGGATCTGACCTCTTTGGAG | 59.546 | 47.826 | 0.00 | 0.00 | 39.71 | 3.86 |
2033 | 2267 | 2.245159 | TTGCCGATCATGGATCTGAC | 57.755 | 50.000 | 4.86 | 0.00 | 36.96 | 3.51 |
2066 | 2300 | 3.244665 | TGAGATGGATGGTGTGGATATGC | 60.245 | 47.826 | 0.00 | 0.00 | 0.00 | 3.14 |
2143 | 2377 | 4.341806 | TGGTGAAAATGATGCTTGAGTGTT | 59.658 | 37.500 | 0.00 | 0.00 | 0.00 | 3.32 |
2160 | 2394 | 0.404040 | GGGTGGTTGGATCTGGTGAA | 59.596 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2179 | 2414 | 4.443598 | GGTGAAAACCTAGATCCTAGCCTG | 60.444 | 50.000 | 0.00 | 0.00 | 0.00 | 4.85 |
2225 | 2460 | 1.243342 | TGTTCAAGGCATTGCTCGGG | 61.243 | 55.000 | 6.15 | 0.00 | 36.30 | 5.14 |
2341 | 2776 | 6.013725 | ACCACAACTTGATGACTTAGATGGTA | 60.014 | 38.462 | 0.00 | 0.00 | 33.88 | 3.25 |
2348 | 4190 | 7.619965 | TGATGATACCACAACTTGATGACTTA | 58.380 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
2376 | 4218 | 9.477484 | CTGGCTTATAGTCGTAATTGTAATCTT | 57.523 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
2405 | 4247 | 5.525378 | AGCGTCTCCAAGATTTGACATTATC | 59.475 | 40.000 | 0.00 | 0.00 | 0.00 | 1.75 |
2411 | 4253 | 2.413453 | GTCAGCGTCTCCAAGATTTGAC | 59.587 | 50.000 | 0.00 | 0.00 | 30.51 | 3.18 |
2464 | 4306 | 4.748798 | CCCTCCCCTGTCCTGCCT | 62.749 | 72.222 | 0.00 | 0.00 | 0.00 | 4.75 |
2482 | 4324 | 1.208535 | TGACCGCGGGTGAATTTATCT | 59.791 | 47.619 | 31.76 | 2.41 | 35.25 | 1.98 |
2483 | 4325 | 1.329599 | GTGACCGCGGGTGAATTTATC | 59.670 | 52.381 | 31.76 | 14.89 | 35.25 | 1.75 |
2484 | 4326 | 1.065709 | AGTGACCGCGGGTGAATTTAT | 60.066 | 47.619 | 31.76 | 3.99 | 35.25 | 1.40 |
2485 | 4327 | 0.322322 | AGTGACCGCGGGTGAATTTA | 59.678 | 50.000 | 31.76 | 0.00 | 35.25 | 1.40 |
2486 | 4328 | 1.072505 | AGTGACCGCGGGTGAATTT | 59.927 | 52.632 | 31.76 | 5.85 | 35.25 | 1.82 |
2487 | 4329 | 1.671054 | CAGTGACCGCGGGTGAATT | 60.671 | 57.895 | 31.76 | 6.78 | 35.25 | 2.17 |
2488 | 4330 | 1.537814 | TACAGTGACCGCGGGTGAAT | 61.538 | 55.000 | 31.76 | 7.71 | 35.25 | 2.57 |
2489 | 4331 | 1.537814 | ATACAGTGACCGCGGGTGAA | 61.538 | 55.000 | 31.76 | 8.82 | 35.25 | 3.18 |
2490 | 4332 | 1.537814 | AATACAGTGACCGCGGGTGA | 61.538 | 55.000 | 31.76 | 9.81 | 35.25 | 4.02 |
2491 | 4333 | 0.672401 | AAATACAGTGACCGCGGGTG | 60.672 | 55.000 | 31.76 | 22.07 | 35.25 | 4.61 |
2492 | 4334 | 0.672401 | CAAATACAGTGACCGCGGGT | 60.672 | 55.000 | 31.76 | 19.47 | 39.44 | 5.28 |
2493 | 4335 | 0.390603 | TCAAATACAGTGACCGCGGG | 60.391 | 55.000 | 31.76 | 13.93 | 0.00 | 6.13 |
2494 | 4336 | 1.593006 | GATCAAATACAGTGACCGCGG | 59.407 | 52.381 | 26.86 | 26.86 | 0.00 | 6.46 |
2495 | 4337 | 2.029244 | GTGATCAAATACAGTGACCGCG | 59.971 | 50.000 | 0.00 | 0.00 | 0.00 | 6.46 |
2496 | 4338 | 3.000041 | TGTGATCAAATACAGTGACCGC | 59.000 | 45.455 | 0.00 | 0.00 | 0.00 | 5.68 |
2497 | 4339 | 5.179368 | ACTTTGTGATCAAATACAGTGACCG | 59.821 | 40.000 | 0.00 | 0.00 | 41.77 | 4.79 |
2498 | 4340 | 6.560253 | ACTTTGTGATCAAATACAGTGACC | 57.440 | 37.500 | 0.00 | 0.00 | 41.77 | 4.02 |
2499 | 4341 | 7.587757 | GTGAACTTTGTGATCAAATACAGTGAC | 59.412 | 37.037 | 0.00 | 0.00 | 41.77 | 3.67 |
2500 | 4342 | 7.498900 | AGTGAACTTTGTGATCAAATACAGTGA | 59.501 | 33.333 | 0.00 | 0.00 | 41.77 | 3.41 |
2501 | 4343 | 7.642669 | AGTGAACTTTGTGATCAAATACAGTG | 58.357 | 34.615 | 0.00 | 0.00 | 41.77 | 3.66 |
2502 | 4344 | 7.807977 | AGTGAACTTTGTGATCAAATACAGT | 57.192 | 32.000 | 0.00 | 0.00 | 41.77 | 3.55 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.