Multiple sequence alignment - TraesCS4A01G409600
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 | TraesCS4A01G409600 | chr4A | 100.000 | 2823 | 0 | 0 | 1 | 2823 | 682364105 | 682366927 | 0.000000e+00 | 5214.0 |
1 | TraesCS4A01G409600 | chr4A | 91.549 | 284 | 23 | 1 | 2351 | 2633 | 66892284 | 66892567 | 9.480000e-105 | 390.0 |
2 | TraesCS4A01G409600 | chr4D | 91.336 | 2366 | 112 | 33 | 1 | 2309 | 475674475 | 475676804 | 0.000000e+00 | 3147.0 |
3 | TraesCS4A01G409600 | chr4D | 87.113 | 194 | 11 | 3 | 2638 | 2823 | 475676824 | 475677011 | 1.020000e-49 | 207.0 |
4 | TraesCS4A01G409600 | chr4D | 79.775 | 267 | 32 | 13 | 27 | 271 | 87539412 | 87539146 | 1.040000e-39 | 174.0 |
5 | TraesCS4A01G409600 | chr4B | 91.071 | 2363 | 103 | 44 | 1 | 2302 | 600240849 | 600243164 | 0.000000e+00 | 3096.0 |
6 | TraesCS4A01G409600 | chr4B | 90.116 | 172 | 10 | 2 | 2638 | 2809 | 600243191 | 600243355 | 1.700000e-52 | 217.0 |
7 | TraesCS4A01G409600 | chr2A | 92.933 | 283 | 19 | 1 | 2351 | 2632 | 745560571 | 745560853 | 7.280000e-111 | 411.0 |
8 | TraesCS4A01G409600 | chr2A | 91.034 | 290 | 24 | 2 | 2351 | 2638 | 161365966 | 161366255 | 9.480000e-105 | 390.0 |
9 | TraesCS4A01G409600 | chr2A | 91.549 | 284 | 23 | 1 | 2351 | 2633 | 639969127 | 639969410 | 9.480000e-105 | 390.0 |
10 | TraesCS4A01G409600 | chr2A | 91.549 | 284 | 23 | 1 | 2351 | 2633 | 639976499 | 639976782 | 9.480000e-105 | 390.0 |
11 | TraesCS4A01G409600 | chr1A | 92.606 | 284 | 20 | 1 | 2351 | 2633 | 232326144 | 232326427 | 9.410000e-110 | 407.0 |
12 | TraesCS4A01G409600 | chr1A | 80.135 | 297 | 47 | 8 | 91 | 377 | 520566379 | 520566085 | 7.920000e-51 | 211.0 |
13 | TraesCS4A01G409600 | chr7A | 91.844 | 282 | 22 | 1 | 2351 | 2631 | 619588651 | 619588932 | 2.640000e-105 | 392.0 |
14 | TraesCS4A01G409600 | chr7A | 77.546 | 383 | 56 | 18 | 23 | 376 | 19094925 | 19094544 | 1.330000e-48 | 204.0 |
15 | TraesCS4A01G409600 | chr5A | 91.519 | 283 | 23 | 1 | 2351 | 2632 | 681937270 | 681937552 | 3.410000e-104 | 388.0 |
16 | TraesCS4A01G409600 | chr5A | 90.877 | 285 | 24 | 2 | 2351 | 2633 | 307705554 | 307705838 | 5.710000e-102 | 381.0 |
17 | TraesCS4A01G409600 | chr5A | 80.808 | 99 | 19 | 0 | 1496 | 1594 | 244430624 | 244430722 | 8.380000e-11 | 78.7 |
18 | TraesCS4A01G409600 | chr2B | 73.947 | 380 | 71 | 17 | 23 | 378 | 721117139 | 721116764 | 8.210000e-26 | 128.0 |
19 | TraesCS4A01G409600 | chr2B | 76.493 | 268 | 38 | 14 | 16 | 260 | 767410708 | 767410443 | 3.820000e-24 | 122.0 |
20 | TraesCS4A01G409600 | chr5D | 77.251 | 211 | 30 | 11 | 3 | 197 | 25010865 | 25011073 | 1.070000e-19 | 108.0 |
21 | TraesCS4A01G409600 | chr6D | 77.103 | 214 | 28 | 13 | 23 | 215 | 200480514 | 200480727 | 1.380000e-18 | 104.0 |
22 | TraesCS4A01G409600 | chr5B | 82.828 | 99 | 17 | 0 | 1496 | 1594 | 207587881 | 207587783 | 3.870000e-14 | 89.8 |
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 | TraesCS4A01G409600 | chr4A | 682364105 | 682366927 | 2822 | False | 5214.0 | 5214 | 100.0000 | 1 | 2823 | 1 | chr4A.!!$F2 | 2822 |
1 | TraesCS4A01G409600 | chr4D | 475674475 | 475677011 | 2536 | False | 1677.0 | 3147 | 89.2245 | 1 | 2823 | 2 | chr4D.!!$F1 | 2822 |
2 | TraesCS4A01G409600 | chr4B | 600240849 | 600243355 | 2506 | False | 1656.5 | 3096 | 90.5935 | 1 | 2809 | 2 | chr4B.!!$F1 | 2808 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
144 | 145 | 0.246635 | GCGTGTATGGTGAGTGGTCT | 59.753 | 55.0 | 0.0 | 0.0 | 0.0 | 3.85 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2137 | 2213 | 0.181114 | CACGGGATGGTGATGGATGT | 59.819 | 55.0 | 0.0 | 0.0 | 40.38 | 3.06 | 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 |
---|---|---|---|---|---|---|---|---|---|
30 | 31 | 2.252714 | GGGCCGGATAGAAGAGAGAAT | 58.747 | 52.381 | 5.05 | 0.00 | 0.00 | 2.40 |
31 | 32 | 3.181422 | TGGGCCGGATAGAAGAGAGAATA | 60.181 | 47.826 | 5.05 | 0.00 | 0.00 | 1.75 |
48 | 49 | 7.559897 | AGAGAGAATAAAAAGTTGACCAAACCA | 59.440 | 33.333 | 0.00 | 0.00 | 39.85 | 3.67 |
51 | 52 | 8.250143 | AGAATAAAAAGTTGACCAAACCAGAT | 57.750 | 30.769 | 0.00 | 0.00 | 39.85 | 2.90 |
75 | 76 | 4.335416 | CCTCAAAGCCTCCTTAAATGTCA | 58.665 | 43.478 | 0.00 | 0.00 | 0.00 | 3.58 |
131 | 132 | 3.376078 | GGAGTGACCGGGCGTGTA | 61.376 | 66.667 | 6.32 | 0.00 | 0.00 | 2.90 |
136 | 137 | 2.510691 | GACCGGGCGTGTATGGTG | 60.511 | 66.667 | 6.32 | 0.00 | 34.12 | 4.17 |
143 | 144 | 0.739813 | GGCGTGTATGGTGAGTGGTC | 60.740 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
144 | 145 | 0.246635 | GCGTGTATGGTGAGTGGTCT | 59.753 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
247 | 250 | 2.037121 | TGCATGTGACCGGATGTATAGG | 59.963 | 50.000 | 9.46 | 0.00 | 0.00 | 2.57 |
288 | 292 | 3.248602 | GGCTGCATAGACGAAAACATAGG | 59.751 | 47.826 | 0.50 | 0.00 | 0.00 | 2.57 |
306 | 310 | 1.137479 | AGGGAGTCAAAACGAACACGA | 59.863 | 47.619 | 0.00 | 0.00 | 0.00 | 4.35 |
314 | 318 | 0.249573 | AAACGAACACGACCGGACAT | 60.250 | 50.000 | 9.46 | 0.00 | 0.00 | 3.06 |
330 | 349 | 1.200716 | GACATTGGTCGGACGTGTCTA | 59.799 | 52.381 | 22.01 | 2.14 | 36.98 | 2.59 |
379 | 398 | 1.943340 | GCTGTAGATGCCCTAACAAGC | 59.057 | 52.381 | 0.00 | 0.00 | 0.00 | 4.01 |
445 | 464 | 2.703007 | CCCCTGGATCCTTCTAGAACAG | 59.297 | 54.545 | 14.23 | 7.04 | 32.42 | 3.16 |
454 | 473 | 5.599999 | TCCTTCTAGAACAGCTGTATTCC | 57.400 | 43.478 | 22.01 | 9.89 | 0.00 | 3.01 |
459 | 478 | 1.003118 | AGAACAGCTGTATTCCCGCAA | 59.997 | 47.619 | 22.01 | 0.00 | 0.00 | 4.85 |
498 | 518 | 5.514059 | TCTTTAATGAATTTGCAAAGCGC | 57.486 | 34.783 | 18.19 | 0.00 | 42.89 | 5.92 |
530 | 551 | 1.739929 | CGCTGTATTCACACCGGCA | 60.740 | 57.895 | 0.00 | 0.00 | 31.48 | 5.69 |
569 | 590 | 3.344515 | ACCTTCCGTTTCTATCCTTTGC | 58.655 | 45.455 | 0.00 | 0.00 | 0.00 | 3.68 |
571 | 592 | 3.343617 | CTTCCGTTTCTATCCTTTGCCA | 58.656 | 45.455 | 0.00 | 0.00 | 0.00 | 4.92 |
612 | 634 | 9.376171 | CAGCGTATATTGCGAATTAATAACAAA | 57.624 | 29.630 | 3.96 | 0.00 | 37.44 | 2.83 |
622 | 644 | 8.908903 | TGCGAATTAATAACAAATAATCCCAGT | 58.091 | 29.630 | 0.00 | 0.00 | 0.00 | 4.00 |
675 | 697 | 4.383335 | CCCCGTATTTAGTGACCAGCTAAA | 60.383 | 45.833 | 0.00 | 0.00 | 41.04 | 1.85 |
697 | 719 | 2.094762 | ATCCAAATCGCGTATAGCCC | 57.905 | 50.000 | 5.77 | 0.00 | 44.76 | 5.19 |
709 | 731 | 2.356173 | TATAGCCCCTGGACGCGGTA | 62.356 | 60.000 | 12.47 | 0.00 | 0.00 | 4.02 |
854 | 895 | 5.163513 | AGCAAAGATAGCAACAAAAATCCG | 58.836 | 37.500 | 0.00 | 0.00 | 0.00 | 4.18 |
959 | 1000 | 7.355017 | GCTTTTGTTTTCCATTTCTTTCCATC | 58.645 | 34.615 | 0.00 | 0.00 | 0.00 | 3.51 |
960 | 1001 | 7.520453 | GCTTTTGTTTTCCATTTCTTTCCATCC | 60.520 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
961 | 1002 | 6.491714 | TTGTTTTCCATTTCTTTCCATCCA | 57.508 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
962 | 1003 | 6.684897 | TGTTTTCCATTTCTTTCCATCCAT | 57.315 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
970 | 1011 | 2.278245 | TCTTTCCATCCATCCCTGTGT | 58.722 | 47.619 | 0.00 | 0.00 | 0.00 | 3.72 |
1029 | 1073 | 1.133253 | CGGCGATGTTGACAAGCAG | 59.867 | 57.895 | 0.00 | 8.31 | 36.00 | 4.24 |
1105 | 1149 | 4.020617 | CGGTGGCTGCTTCTCCCA | 62.021 | 66.667 | 0.00 | 0.00 | 0.00 | 4.37 |
1845 | 1911 | 1.626747 | CGAGCATCATCGATAGCCAG | 58.373 | 55.000 | 0.00 | 0.00 | 45.56 | 4.85 |
1877 | 1943 | 8.589338 | GGAGCTGGTAGATTAAATTAGAGATCA | 58.411 | 37.037 | 0.00 | 0.00 | 0.00 | 2.92 |
1896 | 1962 | 1.649171 | CATATCCGTGATTAGCGTCGC | 59.351 | 52.381 | 9.80 | 9.80 | 0.00 | 5.19 |
1974 | 2041 | 4.505324 | GGACTGCCCTTTAGGATTAGTT | 57.495 | 45.455 | 0.00 | 0.00 | 38.24 | 2.24 |
1975 | 2042 | 4.200092 | GGACTGCCCTTTAGGATTAGTTG | 58.800 | 47.826 | 0.00 | 0.00 | 38.24 | 3.16 |
2043 | 2110 | 0.605589 | GGGTCAGTCAGTCAGTCAGG | 59.394 | 60.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2047 | 2114 | 0.037512 | CAGTCAGTCAGTCAGGCAGG | 60.038 | 60.000 | 0.00 | 0.00 | 0.00 | 4.85 |
2109 | 2177 | 0.170561 | TCGAGTCAAGCTAGCGGAAC | 59.829 | 55.000 | 9.55 | 8.59 | 0.00 | 3.62 |
2113 | 2181 | 0.389426 | GTCAAGCTAGCGGAACCGAA | 60.389 | 55.000 | 17.63 | 3.19 | 42.83 | 4.30 |
2137 | 2213 | 2.768527 | ACTTATTAGCAGAGCAGGCAGA | 59.231 | 45.455 | 0.00 | 0.00 | 0.00 | 4.26 |
2138 | 2214 | 2.898729 | TATTAGCAGAGCAGGCAGAC | 57.101 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2139 | 2215 | 0.907486 | ATTAGCAGAGCAGGCAGACA | 59.093 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2140 | 2216 | 0.907486 | TTAGCAGAGCAGGCAGACAT | 59.093 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
2141 | 2217 | 0.463204 | TAGCAGAGCAGGCAGACATC | 59.537 | 55.000 | 0.00 | 0.00 | 0.00 | 3.06 |
2218 | 2316 | 2.807967 | TCTGCGTTGTCTTGAAATGGAG | 59.192 | 45.455 | 0.00 | 0.00 | 34.37 | 3.86 |
2245 | 2343 | 3.668757 | CGCTTGTCATGTTCATCAGTTGG | 60.669 | 47.826 | 0.00 | 0.00 | 0.00 | 3.77 |
2261 | 2359 | 4.126437 | CAGTTGGTGTGTGTATGTTCTGA | 58.874 | 43.478 | 0.00 | 0.00 | 0.00 | 3.27 |
2292 | 2391 | 2.484264 | GCCTTCAGCGTAGTGTGATTTT | 59.516 | 45.455 | 0.00 | 0.00 | 0.00 | 1.82 |
2296 | 2395 | 2.729360 | TCAGCGTAGTGTGATTTTGACG | 59.271 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
2302 | 2401 | 2.146342 | AGTGTGATTTTGACGGCTCTG | 58.854 | 47.619 | 0.00 | 0.00 | 0.00 | 3.35 |
2307 | 2406 | 1.131315 | GATTTTGACGGCTCTGCTTCC | 59.869 | 52.381 | 0.00 | 0.00 | 0.00 | 3.46 |
2308 | 2407 | 0.108585 | TTTTGACGGCTCTGCTTCCT | 59.891 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
2309 | 2408 | 0.320771 | TTTGACGGCTCTGCTTCCTC | 60.321 | 55.000 | 0.00 | 0.00 | 0.00 | 3.71 |
2310 | 2409 | 1.188219 | TTGACGGCTCTGCTTCCTCT | 61.188 | 55.000 | 0.00 | 0.00 | 0.00 | 3.69 |
2311 | 2410 | 1.188219 | TGACGGCTCTGCTTCCTCTT | 61.188 | 55.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2312 | 2411 | 0.036858 | GACGGCTCTGCTTCCTCTTT | 60.037 | 55.000 | 0.00 | 0.00 | 0.00 | 2.52 |
2313 | 2412 | 0.036858 | ACGGCTCTGCTTCCTCTTTC | 60.037 | 55.000 | 0.00 | 0.00 | 0.00 | 2.62 |
2314 | 2413 | 0.248843 | CGGCTCTGCTTCCTCTTTCT | 59.751 | 55.000 | 0.00 | 0.00 | 0.00 | 2.52 |
2315 | 2414 | 1.338579 | CGGCTCTGCTTCCTCTTTCTT | 60.339 | 52.381 | 0.00 | 0.00 | 0.00 | 2.52 |
2316 | 2415 | 2.789213 | GGCTCTGCTTCCTCTTTCTTT | 58.211 | 47.619 | 0.00 | 0.00 | 0.00 | 2.52 |
2317 | 2416 | 3.153130 | GGCTCTGCTTCCTCTTTCTTTT | 58.847 | 45.455 | 0.00 | 0.00 | 0.00 | 2.27 |
2318 | 2417 | 3.571828 | GGCTCTGCTTCCTCTTTCTTTTT | 59.428 | 43.478 | 0.00 | 0.00 | 0.00 | 1.94 |
2338 | 2437 | 8.770828 | TCTTTTTCTTTCAGTATCCAAGTTACG | 58.229 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
2339 | 2438 | 7.429636 | TTTTCTTTCAGTATCCAAGTTACGG | 57.570 | 36.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2340 | 2439 | 5.080969 | TCTTTCAGTATCCAAGTTACGGG | 57.919 | 43.478 | 0.00 | 0.00 | 0.00 | 5.28 |
2341 | 2440 | 2.973694 | TCAGTATCCAAGTTACGGGC | 57.026 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
2342 | 2441 | 1.483415 | TCAGTATCCAAGTTACGGGCC | 59.517 | 52.381 | 0.00 | 0.00 | 0.00 | 5.80 |
2343 | 2442 | 1.485066 | CAGTATCCAAGTTACGGGCCT | 59.515 | 52.381 | 0.84 | 0.00 | 0.00 | 5.19 |
2344 | 2443 | 1.761198 | AGTATCCAAGTTACGGGCCTC | 59.239 | 52.381 | 0.84 | 0.00 | 0.00 | 4.70 |
2345 | 2444 | 1.761198 | GTATCCAAGTTACGGGCCTCT | 59.239 | 52.381 | 0.84 | 0.00 | 0.00 | 3.69 |
2346 | 2445 | 1.286248 | ATCCAAGTTACGGGCCTCTT | 58.714 | 50.000 | 0.84 | 0.00 | 0.00 | 2.85 |
2347 | 2446 | 1.061546 | TCCAAGTTACGGGCCTCTTT | 58.938 | 50.000 | 0.84 | 0.00 | 0.00 | 2.52 |
2348 | 2447 | 1.165270 | CCAAGTTACGGGCCTCTTTG | 58.835 | 55.000 | 0.84 | 0.00 | 0.00 | 2.77 |
2349 | 2448 | 1.271163 | CCAAGTTACGGGCCTCTTTGA | 60.271 | 52.381 | 0.84 | 0.00 | 0.00 | 2.69 |
2350 | 2449 | 2.618045 | CCAAGTTACGGGCCTCTTTGAT | 60.618 | 50.000 | 0.84 | 0.00 | 0.00 | 2.57 |
2351 | 2450 | 3.081804 | CAAGTTACGGGCCTCTTTGATT | 58.918 | 45.455 | 0.84 | 0.00 | 0.00 | 2.57 |
2352 | 2451 | 2.987232 | AGTTACGGGCCTCTTTGATTC | 58.013 | 47.619 | 0.84 | 0.00 | 0.00 | 2.52 |
2353 | 2452 | 1.664151 | GTTACGGGCCTCTTTGATTCG | 59.336 | 52.381 | 0.84 | 0.00 | 0.00 | 3.34 |
2354 | 2453 | 1.187974 | TACGGGCCTCTTTGATTCGA | 58.812 | 50.000 | 0.84 | 0.00 | 0.00 | 3.71 |
2355 | 2454 | 0.323629 | ACGGGCCTCTTTGATTCGAA | 59.676 | 50.000 | 0.84 | 0.00 | 0.00 | 3.71 |
2356 | 2455 | 1.271163 | ACGGGCCTCTTTGATTCGAAA | 60.271 | 47.619 | 0.00 | 0.00 | 0.00 | 3.46 |
2357 | 2456 | 1.810151 | CGGGCCTCTTTGATTCGAAAA | 59.190 | 47.619 | 0.00 | 0.00 | 0.00 | 2.29 |
2358 | 2457 | 2.414161 | CGGGCCTCTTTGATTCGAAAAC | 60.414 | 50.000 | 0.00 | 0.00 | 0.00 | 2.43 |
2359 | 2458 | 2.414161 | GGGCCTCTTTGATTCGAAAACG | 60.414 | 50.000 | 0.00 | 0.00 | 0.00 | 3.60 |
2360 | 2459 | 2.225727 | GGCCTCTTTGATTCGAAAACGT | 59.774 | 45.455 | 0.00 | 0.00 | 0.00 | 3.99 |
2361 | 2460 | 3.434299 | GGCCTCTTTGATTCGAAAACGTA | 59.566 | 43.478 | 0.00 | 0.00 | 0.00 | 3.57 |
2362 | 2461 | 4.435651 | GGCCTCTTTGATTCGAAAACGTAG | 60.436 | 45.833 | 0.00 | 1.89 | 0.00 | 3.51 |
2363 | 2462 | 4.435651 | GCCTCTTTGATTCGAAAACGTAGG | 60.436 | 45.833 | 0.00 | 6.69 | 0.00 | 3.18 |
2364 | 2463 | 4.927425 | CCTCTTTGATTCGAAAACGTAGGA | 59.073 | 41.667 | 0.00 | 0.00 | 0.00 | 2.94 |
2365 | 2464 | 5.407387 | CCTCTTTGATTCGAAAACGTAGGAA | 59.593 | 40.000 | 0.00 | 0.00 | 0.00 | 3.36 |
2366 | 2465 | 6.092259 | CCTCTTTGATTCGAAAACGTAGGAAT | 59.908 | 38.462 | 0.00 | 0.00 | 32.15 | 3.01 |
2367 | 2466 | 7.277098 | CCTCTTTGATTCGAAAACGTAGGAATA | 59.723 | 37.037 | 0.00 | 0.00 | 29.79 | 1.75 |
2368 | 2467 | 8.181487 | TCTTTGATTCGAAAACGTAGGAATAG | 57.819 | 34.615 | 0.00 | 0.00 | 29.79 | 1.73 |
2369 | 2468 | 8.030692 | TCTTTGATTCGAAAACGTAGGAATAGA | 58.969 | 33.333 | 0.00 | 0.00 | 29.79 | 1.98 |
2370 | 2469 | 8.537049 | TTTGATTCGAAAACGTAGGAATAGAA | 57.463 | 30.769 | 0.00 | 0.00 | 29.79 | 2.10 |
2371 | 2470 | 8.537049 | TTGATTCGAAAACGTAGGAATAGAAA | 57.463 | 30.769 | 0.00 | 0.00 | 29.79 | 2.52 |
2372 | 2471 | 8.537049 | TGATTCGAAAACGTAGGAATAGAAAA | 57.463 | 30.769 | 0.00 | 0.00 | 29.79 | 2.29 |
2373 | 2472 | 8.991026 | TGATTCGAAAACGTAGGAATAGAAAAA | 58.009 | 29.630 | 0.00 | 0.00 | 29.79 | 1.94 |
2374 | 2473 | 9.474249 | GATTCGAAAACGTAGGAATAGAAAAAG | 57.526 | 33.333 | 0.00 | 0.00 | 29.79 | 2.27 |
2375 | 2474 | 7.951530 | TCGAAAACGTAGGAATAGAAAAAGT | 57.048 | 32.000 | 0.00 | 0.00 | 0.00 | 2.66 |
2376 | 2475 | 7.790000 | TCGAAAACGTAGGAATAGAAAAAGTG | 58.210 | 34.615 | 0.00 | 0.00 | 0.00 | 3.16 |
2377 | 2476 | 7.439056 | TCGAAAACGTAGGAATAGAAAAAGTGT | 59.561 | 33.333 | 0.00 | 0.00 | 0.00 | 3.55 |
2378 | 2477 | 8.702438 | CGAAAACGTAGGAATAGAAAAAGTGTA | 58.298 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
2380 | 2479 | 8.543862 | AAACGTAGGAATAGAAAAAGTGTAGG | 57.456 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
2381 | 2480 | 6.637657 | ACGTAGGAATAGAAAAAGTGTAGGG | 58.362 | 40.000 | 0.00 | 0.00 | 0.00 | 3.53 |
2382 | 2481 | 6.212187 | ACGTAGGAATAGAAAAAGTGTAGGGT | 59.788 | 38.462 | 0.00 | 0.00 | 0.00 | 4.34 |
2383 | 2482 | 7.101700 | CGTAGGAATAGAAAAAGTGTAGGGTT | 58.898 | 38.462 | 0.00 | 0.00 | 0.00 | 4.11 |
2384 | 2483 | 7.064253 | CGTAGGAATAGAAAAAGTGTAGGGTTG | 59.936 | 40.741 | 0.00 | 0.00 | 0.00 | 3.77 |
2385 | 2484 | 7.086685 | AGGAATAGAAAAAGTGTAGGGTTGA | 57.913 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2386 | 2485 | 7.523415 | AGGAATAGAAAAAGTGTAGGGTTGAA | 58.477 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
2387 | 2486 | 7.665974 | AGGAATAGAAAAAGTGTAGGGTTGAAG | 59.334 | 37.037 | 0.00 | 0.00 | 0.00 | 3.02 |
2388 | 2487 | 7.447545 | GGAATAGAAAAAGTGTAGGGTTGAAGT | 59.552 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
2389 | 2488 | 7.745620 | ATAGAAAAAGTGTAGGGTTGAAGTG | 57.254 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2390 | 2489 | 4.887655 | AGAAAAAGTGTAGGGTTGAAGTGG | 59.112 | 41.667 | 0.00 | 0.00 | 0.00 | 4.00 |
2391 | 2490 | 2.271944 | AAGTGTAGGGTTGAAGTGGC | 57.728 | 50.000 | 0.00 | 0.00 | 0.00 | 5.01 |
2392 | 2491 | 1.136828 | AGTGTAGGGTTGAAGTGGCA | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 4.92 |
2393 | 2492 | 1.705186 | AGTGTAGGGTTGAAGTGGCAT | 59.295 | 47.619 | 0.00 | 0.00 | 0.00 | 4.40 |
2394 | 2493 | 1.812571 | GTGTAGGGTTGAAGTGGCATG | 59.187 | 52.381 | 0.00 | 0.00 | 0.00 | 4.06 |
2395 | 2494 | 0.811281 | GTAGGGTTGAAGTGGCATGC | 59.189 | 55.000 | 9.90 | 9.90 | 0.00 | 4.06 |
2396 | 2495 | 0.323360 | TAGGGTTGAAGTGGCATGCC | 60.323 | 55.000 | 30.54 | 30.54 | 0.00 | 4.40 |
2397 | 2496 | 1.607467 | GGGTTGAAGTGGCATGCCT | 60.607 | 57.895 | 35.53 | 17.85 | 36.94 | 4.75 |
2398 | 2497 | 0.323360 | GGGTTGAAGTGGCATGCCTA | 60.323 | 55.000 | 35.53 | 20.20 | 36.94 | 3.93 |
2399 | 2498 | 1.686115 | GGGTTGAAGTGGCATGCCTAT | 60.686 | 52.381 | 35.53 | 21.94 | 36.94 | 2.57 |
2400 | 2499 | 2.102578 | GGTTGAAGTGGCATGCCTATT | 58.897 | 47.619 | 35.53 | 28.25 | 36.94 | 1.73 |
2401 | 2500 | 2.497273 | GGTTGAAGTGGCATGCCTATTT | 59.503 | 45.455 | 35.53 | 25.38 | 36.94 | 1.40 |
2402 | 2501 | 3.429410 | GGTTGAAGTGGCATGCCTATTTC | 60.429 | 47.826 | 35.53 | 30.45 | 36.94 | 2.17 |
2403 | 2502 | 3.084536 | TGAAGTGGCATGCCTATTTCA | 57.915 | 42.857 | 35.53 | 32.23 | 36.94 | 2.69 |
2404 | 2503 | 3.429492 | TGAAGTGGCATGCCTATTTCAA | 58.571 | 40.909 | 35.53 | 20.82 | 36.94 | 2.69 |
2405 | 2504 | 4.025360 | TGAAGTGGCATGCCTATTTCAAT | 58.975 | 39.130 | 35.53 | 12.52 | 36.94 | 2.57 |
2406 | 2505 | 4.098349 | TGAAGTGGCATGCCTATTTCAATC | 59.902 | 41.667 | 35.53 | 20.92 | 36.94 | 2.67 |
2407 | 2506 | 2.961062 | AGTGGCATGCCTATTTCAATCC | 59.039 | 45.455 | 35.53 | 6.75 | 36.94 | 3.01 |
2408 | 2507 | 2.961062 | GTGGCATGCCTATTTCAATCCT | 59.039 | 45.455 | 35.53 | 0.00 | 36.94 | 3.24 |
2409 | 2508 | 4.141181 | AGTGGCATGCCTATTTCAATCCTA | 60.141 | 41.667 | 35.53 | 9.43 | 36.94 | 2.94 |
2410 | 2509 | 4.768968 | GTGGCATGCCTATTTCAATCCTAT | 59.231 | 41.667 | 35.53 | 0.00 | 36.94 | 2.57 |
2411 | 2510 | 5.945784 | GTGGCATGCCTATTTCAATCCTATA | 59.054 | 40.000 | 35.53 | 8.25 | 36.94 | 1.31 |
2412 | 2511 | 6.434028 | GTGGCATGCCTATTTCAATCCTATAA | 59.566 | 38.462 | 35.53 | 7.83 | 36.94 | 0.98 |
2413 | 2512 | 7.009550 | TGGCATGCCTATTTCAATCCTATAAA | 58.990 | 34.615 | 35.53 | 7.46 | 36.94 | 1.40 |
2414 | 2513 | 7.508636 | TGGCATGCCTATTTCAATCCTATAAAA | 59.491 | 33.333 | 35.53 | 7.11 | 36.94 | 1.52 |
2415 | 2514 | 8.534496 | GGCATGCCTATTTCAATCCTATAAAAT | 58.466 | 33.333 | 29.98 | 0.00 | 0.00 | 1.82 |
2416 | 2515 | 9.933723 | GCATGCCTATTTCAATCCTATAAAATT | 57.066 | 29.630 | 6.36 | 0.00 | 0.00 | 1.82 |
2436 | 2535 | 6.913873 | AATTAGCAATGATTGTTTGATGCC | 57.086 | 33.333 | 7.05 | 0.00 | 34.44 | 4.40 |
2437 | 2536 | 3.965379 | AGCAATGATTGTTTGATGCCA | 57.035 | 38.095 | 7.05 | 0.00 | 34.44 | 4.92 |
2438 | 2537 | 3.592059 | AGCAATGATTGTTTGATGCCAC | 58.408 | 40.909 | 7.05 | 0.00 | 34.44 | 5.01 |
2439 | 2538 | 2.346244 | GCAATGATTGTTTGATGCCACG | 59.654 | 45.455 | 7.05 | 0.00 | 0.00 | 4.94 |
2440 | 2539 | 2.924926 | CAATGATTGTTTGATGCCACGG | 59.075 | 45.455 | 0.00 | 0.00 | 0.00 | 4.94 |
2441 | 2540 | 1.902938 | TGATTGTTTGATGCCACGGA | 58.097 | 45.000 | 0.00 | 0.00 | 0.00 | 4.69 |
2442 | 2541 | 2.234143 | TGATTGTTTGATGCCACGGAA | 58.766 | 42.857 | 0.00 | 0.00 | 0.00 | 4.30 |
2443 | 2542 | 2.625314 | TGATTGTTTGATGCCACGGAAA | 59.375 | 40.909 | 0.00 | 0.00 | 0.00 | 3.13 |
2444 | 2543 | 3.068732 | TGATTGTTTGATGCCACGGAAAA | 59.931 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
2445 | 2544 | 3.526931 | TTGTTTGATGCCACGGAAAAA | 57.473 | 38.095 | 0.00 | 0.00 | 0.00 | 1.94 |
2490 | 2589 | 8.934023 | TGGTTAGAGTGGATGTTAAATTTTCT | 57.066 | 30.769 | 0.00 | 0.00 | 0.00 | 2.52 |
2559 | 2658 | 9.517868 | AGATCCAATCTTATGAATCAAAGGATC | 57.482 | 33.333 | 0.00 | 0.00 | 44.98 | 3.36 |
2560 | 2659 | 9.293404 | GATCCAATCTTATGAATCAAAGGATCA | 57.707 | 33.333 | 0.00 | 0.00 | 44.38 | 2.92 |
2561 | 2660 | 9.650714 | ATCCAATCTTATGAATCAAAGGATCAA | 57.349 | 29.630 | 0.00 | 0.00 | 31.88 | 2.57 |
2562 | 2661 | 9.650714 | TCCAATCTTATGAATCAAAGGATCAAT | 57.349 | 29.630 | 0.00 | 0.00 | 31.88 | 2.57 |
2607 | 2706 | 9.799106 | GATTTCAATCCTCCAGAAATCCTATAA | 57.201 | 33.333 | 13.38 | 0.00 | 45.88 | 0.98 |
2609 | 2708 | 9.989296 | TTTCAATCCTCCAGAAATCCTATAAAA | 57.011 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
2633 | 2732 | 9.875691 | AAATTCTTTGAATCAAATAAGCCCTAC | 57.124 | 29.630 | 9.02 | 0.00 | 32.70 | 3.18 |
2634 | 2733 | 8.593945 | ATTCTTTGAATCAAATAAGCCCTACA | 57.406 | 30.769 | 9.02 | 0.00 | 32.70 | 2.74 |
2635 | 2734 | 8.593945 | TTCTTTGAATCAAATAAGCCCTACAT | 57.406 | 30.769 | 9.02 | 0.00 | 32.70 | 2.29 |
2636 | 2735 | 9.693739 | TTCTTTGAATCAAATAAGCCCTACATA | 57.306 | 29.630 | 9.02 | 0.00 | 32.70 | 2.29 |
2702 | 2801 | 0.723414 | CGAAGTGGCGACTACTCGTA | 59.277 | 55.000 | 13.02 | 0.00 | 42.33 | 3.43 |
2703 | 2802 | 1.528603 | CGAAGTGGCGACTACTCGTAC | 60.529 | 57.143 | 13.02 | 0.00 | 42.33 | 3.67 |
2704 | 2803 | 1.736681 | GAAGTGGCGACTACTCGTACT | 59.263 | 52.381 | 0.30 | 0.00 | 42.33 | 2.73 |
2705 | 2804 | 1.367659 | AGTGGCGACTACTCGTACTC | 58.632 | 55.000 | 0.00 | 0.00 | 42.33 | 2.59 |
2706 | 2805 | 0.026027 | GTGGCGACTACTCGTACTCG | 59.974 | 60.000 | 0.00 | 0.00 | 42.33 | 4.18 |
2707 | 2806 | 0.390340 | TGGCGACTACTCGTACTCGT | 60.390 | 55.000 | 0.00 | 0.00 | 42.33 | 4.18 |
2713 | 2812 | 2.275318 | ACTACTCGTACTCGTACTGGC | 58.725 | 52.381 | 5.76 | 0.00 | 38.33 | 4.85 |
2773 | 2872 | 1.881591 | TGCCCTTGCAATTCTTTTGC | 58.118 | 45.000 | 0.00 | 3.44 | 46.66 | 3.68 |
2791 | 2898 | 1.202359 | TGCTTGTTTTTCCTGGCGTTC | 60.202 | 47.619 | 0.00 | 0.00 | 0.00 | 3.95 |
2817 | 2924 | 4.544689 | CCGACCTCGCTCTGCTCG | 62.545 | 72.222 | 0.00 | 0.00 | 38.18 | 5.03 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
10 | 11 | 1.705873 | TTCTCTCTTCTATCCGGCCC | 58.294 | 55.000 | 0.00 | 0.00 | 0.00 | 5.80 |
30 | 31 | 5.303333 | GGGATCTGGTTTGGTCAACTTTTTA | 59.697 | 40.000 | 0.00 | 0.00 | 35.46 | 1.52 |
31 | 32 | 4.100963 | GGGATCTGGTTTGGTCAACTTTTT | 59.899 | 41.667 | 0.00 | 0.00 | 35.46 | 1.94 |
43 | 44 | 1.713078 | AGGCTTTGAGGGATCTGGTTT | 59.287 | 47.619 | 0.00 | 0.00 | 0.00 | 3.27 |
48 | 49 | 1.978361 | AAGGAGGCTTTGAGGGATCT | 58.022 | 50.000 | 0.00 | 0.00 | 0.00 | 2.75 |
51 | 52 | 3.333680 | ACATTTAAGGAGGCTTTGAGGGA | 59.666 | 43.478 | 0.00 | 0.00 | 0.00 | 4.20 |
131 | 132 | 1.072331 | GGACACAAGACCACTCACCAT | 59.928 | 52.381 | 0.00 | 0.00 | 0.00 | 3.55 |
136 | 137 | 1.668151 | GGCGGACACAAGACCACTC | 60.668 | 63.158 | 0.00 | 0.00 | 0.00 | 3.51 |
197 | 200 | 7.287927 | TGACTAGTGAAGAAGGAGAGAGAAAAA | 59.712 | 37.037 | 0.00 | 0.00 | 0.00 | 1.94 |
198 | 201 | 6.778069 | TGACTAGTGAAGAAGGAGAGAGAAAA | 59.222 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
199 | 202 | 6.207810 | GTGACTAGTGAAGAAGGAGAGAGAAA | 59.792 | 42.308 | 0.00 | 0.00 | 0.00 | 2.52 |
200 | 203 | 5.708230 | GTGACTAGTGAAGAAGGAGAGAGAA | 59.292 | 44.000 | 0.00 | 0.00 | 0.00 | 2.87 |
201 | 204 | 5.221945 | TGTGACTAGTGAAGAAGGAGAGAGA | 60.222 | 44.000 | 0.00 | 0.00 | 0.00 | 3.10 |
202 | 205 | 5.007034 | TGTGACTAGTGAAGAAGGAGAGAG | 58.993 | 45.833 | 0.00 | 0.00 | 0.00 | 3.20 |
203 | 206 | 4.986783 | TGTGACTAGTGAAGAAGGAGAGA | 58.013 | 43.478 | 0.00 | 0.00 | 0.00 | 3.10 |
233 | 236 | 7.439381 | TGACTTATTTTCCTATACATCCGGTC | 58.561 | 38.462 | 0.00 | 0.00 | 0.00 | 4.79 |
247 | 250 | 4.096984 | CAGCCATGTCCCTGACTTATTTTC | 59.903 | 45.833 | 0.00 | 0.00 | 33.15 | 2.29 |
288 | 292 | 1.259770 | GGTCGTGTTCGTTTTGACTCC | 59.740 | 52.381 | 0.00 | 0.00 | 38.33 | 3.85 |
306 | 310 | 2.660802 | GTCCGACCAATGTCCGGT | 59.339 | 61.111 | 0.00 | 0.00 | 38.32 | 5.28 |
314 | 318 | 1.536940 | TCATAGACACGTCCGACCAA | 58.463 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
330 | 349 | 2.649531 | TTGACCCCTCAAACGTTCAT | 57.350 | 45.000 | 0.00 | 0.00 | 33.20 | 2.57 |
360 | 379 | 2.939103 | GTGCTTGTTAGGGCATCTACAG | 59.061 | 50.000 | 0.00 | 0.00 | 40.66 | 2.74 |
379 | 398 | 7.226325 | TGAAATCCAAATTTGCTAGGTTTTGTG | 59.774 | 33.333 | 12.92 | 0.00 | 35.21 | 3.33 |
434 | 453 | 4.363999 | CGGGAATACAGCTGTTCTAGAAG | 58.636 | 47.826 | 27.06 | 7.97 | 0.00 | 2.85 |
445 | 464 | 2.544267 | GTGAGTATTGCGGGAATACAGC | 59.456 | 50.000 | 27.05 | 20.16 | 46.31 | 4.40 |
454 | 473 | 0.589729 | GCATTGCGTGAGTATTGCGG | 60.590 | 55.000 | 0.00 | 0.00 | 41.63 | 5.69 |
459 | 478 | 4.970662 | AAAGATTGCATTGCGTGAGTAT | 57.029 | 36.364 | 3.84 | 0.00 | 0.00 | 2.12 |
498 | 518 | 2.202851 | AGCGAATCTGCCAGCTCG | 60.203 | 61.111 | 10.55 | 10.55 | 34.48 | 5.03 |
530 | 551 | 5.279657 | GGAAGGTCAGCAAATTTCCATTTCT | 60.280 | 40.000 | 0.00 | 0.00 | 37.75 | 2.52 |
569 | 590 | 2.032550 | CGCTGGAGATTATTTGCAGTGG | 59.967 | 50.000 | 9.34 | 0.00 | 39.77 | 4.00 |
571 | 592 | 2.991250 | ACGCTGGAGATTATTTGCAGT | 58.009 | 42.857 | 6.18 | 0.00 | 36.50 | 4.40 |
582 | 604 | 3.660501 | ATTCGCAATATACGCTGGAGA | 57.339 | 42.857 | 0.00 | 0.00 | 0.00 | 3.71 |
612 | 634 | 7.121168 | CCAAAATGCGATATACACTGGGATTAT | 59.879 | 37.037 | 0.00 | 0.00 | 0.00 | 1.28 |
630 | 652 | 4.982295 | GGGATTTATTACTCGCCAAAATGC | 59.018 | 41.667 | 0.00 | 0.00 | 0.00 | 3.56 |
675 | 697 | 3.326747 | GGCTATACGCGATTTGGATTCT | 58.673 | 45.455 | 15.93 | 0.00 | 40.44 | 2.40 |
697 | 719 | 1.440938 | CTCTCTCTACCGCGTCCAGG | 61.441 | 65.000 | 4.92 | 0.00 | 0.00 | 4.45 |
854 | 895 | 2.356667 | CTCCACCCCTTTCCTGGC | 59.643 | 66.667 | 0.00 | 0.00 | 0.00 | 4.85 |
960 | 1001 | 3.792047 | CACGCGCACACAGGGATG | 61.792 | 66.667 | 5.73 | 0.00 | 0.00 | 3.51 |
1122 | 1168 | 1.351017 | TCTAACCAAACCCTCAGCCAG | 59.649 | 52.381 | 0.00 | 0.00 | 0.00 | 4.85 |
1170 | 1224 | 1.002274 | ACCTCCAGCCCCTACAGAG | 59.998 | 63.158 | 0.00 | 0.00 | 0.00 | 3.35 |
1172 | 1226 | 2.370445 | CCACCTCCAGCCCCTACAG | 61.370 | 68.421 | 0.00 | 0.00 | 0.00 | 2.74 |
1845 | 1911 | 0.475906 | AATCTACCAGCTCCATGGCC | 59.524 | 55.000 | 6.96 | 0.00 | 44.80 | 5.36 |
1877 | 1943 | 1.402456 | GGCGACGCTAATCACGGATAT | 60.402 | 52.381 | 20.77 | 0.00 | 34.00 | 1.63 |
1896 | 1962 | 4.110493 | GGATGAAGAAGCCGACGG | 57.890 | 61.111 | 10.29 | 10.29 | 0.00 | 4.79 |
1905 | 1971 | 3.659786 | ACACGAAAATCACGGATGAAGA | 58.340 | 40.909 | 0.00 | 0.00 | 38.69 | 2.87 |
1972 | 2039 | 0.888619 | GCTGCTCTTAAACCCCCAAC | 59.111 | 55.000 | 0.00 | 0.00 | 0.00 | 3.77 |
1973 | 2040 | 0.251608 | GGCTGCTCTTAAACCCCCAA | 60.252 | 55.000 | 0.00 | 0.00 | 0.00 | 4.12 |
1974 | 2041 | 1.382629 | GGCTGCTCTTAAACCCCCA | 59.617 | 57.895 | 0.00 | 0.00 | 0.00 | 4.96 |
1975 | 2042 | 0.681243 | CTGGCTGCTCTTAAACCCCC | 60.681 | 60.000 | 0.00 | 0.00 | 0.00 | 5.40 |
2047 | 2114 | 2.125350 | CCGGAAGAGGCTGACTGC | 60.125 | 66.667 | 0.00 | 0.00 | 41.94 | 4.40 |
2109 | 2177 | 5.447818 | CCTGCTCTGCTAATAAGTTTTTCGG | 60.448 | 44.000 | 0.00 | 0.00 | 0.00 | 4.30 |
2113 | 2181 | 4.335416 | TGCCTGCTCTGCTAATAAGTTTT | 58.665 | 39.130 | 0.00 | 0.00 | 0.00 | 2.43 |
2137 | 2213 | 0.181114 | CACGGGATGGTGATGGATGT | 59.819 | 55.000 | 0.00 | 0.00 | 40.38 | 3.06 |
2138 | 2214 | 1.168407 | GCACGGGATGGTGATGGATG | 61.168 | 60.000 | 0.00 | 0.00 | 40.38 | 3.51 |
2139 | 2215 | 1.149174 | GCACGGGATGGTGATGGAT | 59.851 | 57.895 | 0.00 | 0.00 | 40.38 | 3.41 |
2140 | 2216 | 1.846712 | TTGCACGGGATGGTGATGGA | 61.847 | 55.000 | 0.00 | 0.00 | 40.38 | 3.41 |
2141 | 2217 | 1.378382 | TTGCACGGGATGGTGATGG | 60.378 | 57.895 | 0.00 | 0.00 | 40.38 | 3.51 |
2204 | 2302 | 2.416747 | CGAGTGCTCCATTTCAAGACA | 58.583 | 47.619 | 0.00 | 0.00 | 0.00 | 3.41 |
2218 | 2316 | 0.867746 | TGAACATGACAAGCGAGTGC | 59.132 | 50.000 | 0.00 | 0.00 | 43.24 | 4.40 |
2245 | 2343 | 4.991056 | ACAGACATCAGAACATACACACAC | 59.009 | 41.667 | 0.00 | 0.00 | 0.00 | 3.82 |
2261 | 2359 | 0.877071 | CGCTGAAGGCAAACAGACAT | 59.123 | 50.000 | 9.14 | 0.00 | 41.91 | 3.06 |
2284 | 2383 | 0.874390 | GCAGAGCCGTCAAAATCACA | 59.126 | 50.000 | 0.00 | 0.00 | 0.00 | 3.58 |
2285 | 2384 | 1.160137 | AGCAGAGCCGTCAAAATCAC | 58.840 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
2292 | 2391 | 1.188219 | AAGAGGAAGCAGAGCCGTCA | 61.188 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
2296 | 2395 | 2.488204 | AAGAAAGAGGAAGCAGAGCC | 57.512 | 50.000 | 0.00 | 0.00 | 0.00 | 4.70 |
2302 | 2401 | 6.800543 | ACTGAAAGAAAAAGAAAGAGGAAGC | 58.199 | 36.000 | 0.00 | 0.00 | 37.43 | 3.86 |
2307 | 2406 | 9.890352 | CTTGGATACTGAAAGAAAAAGAAAGAG | 57.110 | 33.333 | 0.00 | 0.00 | 37.43 | 2.85 |
2308 | 2407 | 9.408648 | ACTTGGATACTGAAAGAAAAAGAAAGA | 57.591 | 29.630 | 0.00 | 0.00 | 37.43 | 2.52 |
2312 | 2411 | 8.770828 | CGTAACTTGGATACTGAAAGAAAAAGA | 58.229 | 33.333 | 0.00 | 0.00 | 37.43 | 2.52 |
2313 | 2412 | 8.015658 | CCGTAACTTGGATACTGAAAGAAAAAG | 58.984 | 37.037 | 0.00 | 0.00 | 37.43 | 2.27 |
2314 | 2413 | 7.040961 | CCCGTAACTTGGATACTGAAAGAAAAA | 60.041 | 37.037 | 0.00 | 0.00 | 37.43 | 1.94 |
2315 | 2414 | 6.428771 | CCCGTAACTTGGATACTGAAAGAAAA | 59.571 | 38.462 | 0.00 | 0.00 | 37.43 | 2.29 |
2316 | 2415 | 5.935789 | CCCGTAACTTGGATACTGAAAGAAA | 59.064 | 40.000 | 0.00 | 0.00 | 37.43 | 2.52 |
2317 | 2416 | 5.484715 | CCCGTAACTTGGATACTGAAAGAA | 58.515 | 41.667 | 0.00 | 0.00 | 37.43 | 2.52 |
2318 | 2417 | 4.622220 | GCCCGTAACTTGGATACTGAAAGA | 60.622 | 45.833 | 0.00 | 0.00 | 37.43 | 2.52 |
2338 | 2437 | 3.217599 | GTTTTCGAATCAAAGAGGCCC | 57.782 | 47.619 | 0.00 | 0.00 | 0.00 | 5.80 |
2354 | 2453 | 8.996271 | CCTACACTTTTTCTATTCCTACGTTTT | 58.004 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
2355 | 2454 | 7.605309 | CCCTACACTTTTTCTATTCCTACGTTT | 59.395 | 37.037 | 0.00 | 0.00 | 0.00 | 3.60 |
2356 | 2455 | 7.101700 | CCCTACACTTTTTCTATTCCTACGTT | 58.898 | 38.462 | 0.00 | 0.00 | 0.00 | 3.99 |
2357 | 2456 | 6.212187 | ACCCTACACTTTTTCTATTCCTACGT | 59.788 | 38.462 | 0.00 | 0.00 | 0.00 | 3.57 |
2358 | 2457 | 6.637657 | ACCCTACACTTTTTCTATTCCTACG | 58.362 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2359 | 2458 | 8.098912 | TCAACCCTACACTTTTTCTATTCCTAC | 58.901 | 37.037 | 0.00 | 0.00 | 0.00 | 3.18 |
2360 | 2459 | 8.209802 | TCAACCCTACACTTTTTCTATTCCTA | 57.790 | 34.615 | 0.00 | 0.00 | 0.00 | 2.94 |
2361 | 2460 | 7.086685 | TCAACCCTACACTTTTTCTATTCCT | 57.913 | 36.000 | 0.00 | 0.00 | 0.00 | 3.36 |
2362 | 2461 | 7.447545 | ACTTCAACCCTACACTTTTTCTATTCC | 59.552 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
2363 | 2462 | 8.290325 | CACTTCAACCCTACACTTTTTCTATTC | 58.710 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
2364 | 2463 | 7.230712 | CCACTTCAACCCTACACTTTTTCTATT | 59.769 | 37.037 | 0.00 | 0.00 | 0.00 | 1.73 |
2365 | 2464 | 6.715264 | CCACTTCAACCCTACACTTTTTCTAT | 59.285 | 38.462 | 0.00 | 0.00 | 0.00 | 1.98 |
2366 | 2465 | 6.059484 | CCACTTCAACCCTACACTTTTTCTA | 58.941 | 40.000 | 0.00 | 0.00 | 0.00 | 2.10 |
2367 | 2466 | 4.887655 | CCACTTCAACCCTACACTTTTTCT | 59.112 | 41.667 | 0.00 | 0.00 | 0.00 | 2.52 |
2368 | 2467 | 4.499188 | GCCACTTCAACCCTACACTTTTTC | 60.499 | 45.833 | 0.00 | 0.00 | 0.00 | 2.29 |
2369 | 2468 | 3.383505 | GCCACTTCAACCCTACACTTTTT | 59.616 | 43.478 | 0.00 | 0.00 | 0.00 | 1.94 |
2370 | 2469 | 2.956333 | GCCACTTCAACCCTACACTTTT | 59.044 | 45.455 | 0.00 | 0.00 | 0.00 | 2.27 |
2371 | 2470 | 2.092103 | TGCCACTTCAACCCTACACTTT | 60.092 | 45.455 | 0.00 | 0.00 | 0.00 | 2.66 |
2372 | 2471 | 1.493022 | TGCCACTTCAACCCTACACTT | 59.507 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
2373 | 2472 | 1.136828 | TGCCACTTCAACCCTACACT | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 3.55 |
2374 | 2473 | 1.812571 | CATGCCACTTCAACCCTACAC | 59.187 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
2375 | 2474 | 1.886222 | GCATGCCACTTCAACCCTACA | 60.886 | 52.381 | 6.36 | 0.00 | 0.00 | 2.74 |
2376 | 2475 | 0.811281 | GCATGCCACTTCAACCCTAC | 59.189 | 55.000 | 6.36 | 0.00 | 0.00 | 3.18 |
2377 | 2476 | 0.323360 | GGCATGCCACTTCAACCCTA | 60.323 | 55.000 | 32.08 | 0.00 | 35.81 | 3.53 |
2378 | 2477 | 1.607467 | GGCATGCCACTTCAACCCT | 60.607 | 57.895 | 32.08 | 0.00 | 35.81 | 4.34 |
2379 | 2478 | 0.323360 | TAGGCATGCCACTTCAACCC | 60.323 | 55.000 | 37.18 | 7.34 | 38.92 | 4.11 |
2380 | 2479 | 1.767759 | ATAGGCATGCCACTTCAACC | 58.232 | 50.000 | 37.18 | 8.13 | 38.92 | 3.77 |
2381 | 2480 | 3.193267 | TGAAATAGGCATGCCACTTCAAC | 59.807 | 43.478 | 37.18 | 20.95 | 38.92 | 3.18 |
2382 | 2481 | 3.429492 | TGAAATAGGCATGCCACTTCAA | 58.571 | 40.909 | 37.18 | 20.76 | 38.92 | 2.69 |
2383 | 2482 | 3.084536 | TGAAATAGGCATGCCACTTCA | 57.915 | 42.857 | 37.18 | 32.64 | 38.92 | 3.02 |
2384 | 2483 | 4.500375 | GGATTGAAATAGGCATGCCACTTC | 60.500 | 45.833 | 37.18 | 30.79 | 38.92 | 3.01 |
2385 | 2484 | 3.385755 | GGATTGAAATAGGCATGCCACTT | 59.614 | 43.478 | 37.18 | 25.76 | 38.92 | 3.16 |
2386 | 2485 | 2.961062 | GGATTGAAATAGGCATGCCACT | 59.039 | 45.455 | 37.18 | 21.14 | 38.92 | 4.00 |
2387 | 2486 | 2.961062 | AGGATTGAAATAGGCATGCCAC | 59.039 | 45.455 | 37.18 | 21.59 | 38.92 | 5.01 |
2388 | 2487 | 3.317455 | AGGATTGAAATAGGCATGCCA | 57.683 | 42.857 | 37.18 | 23.40 | 38.92 | 4.92 |
2389 | 2488 | 7.466746 | TTTATAGGATTGAAATAGGCATGCC | 57.533 | 36.000 | 30.12 | 30.12 | 0.00 | 4.40 |
2390 | 2489 | 9.933723 | AATTTTATAGGATTGAAATAGGCATGC | 57.066 | 29.630 | 9.90 | 9.90 | 0.00 | 4.06 |
2410 | 2509 | 8.881743 | GGCATCAAACAATCATTGCTAATTTTA | 58.118 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
2411 | 2510 | 7.390996 | TGGCATCAAACAATCATTGCTAATTTT | 59.609 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
2412 | 2511 | 6.879993 | TGGCATCAAACAATCATTGCTAATTT | 59.120 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
2413 | 2512 | 6.314400 | GTGGCATCAAACAATCATTGCTAATT | 59.686 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
2414 | 2513 | 5.813672 | GTGGCATCAAACAATCATTGCTAAT | 59.186 | 36.000 | 0.00 | 0.00 | 0.00 | 1.73 |
2415 | 2514 | 5.170021 | GTGGCATCAAACAATCATTGCTAA | 58.830 | 37.500 | 0.00 | 0.00 | 0.00 | 3.09 |
2416 | 2515 | 4.674885 | CGTGGCATCAAACAATCATTGCTA | 60.675 | 41.667 | 0.00 | 0.00 | 0.00 | 3.49 |
2417 | 2516 | 3.592059 | GTGGCATCAAACAATCATTGCT | 58.408 | 40.909 | 0.00 | 0.00 | 0.00 | 3.91 |
2418 | 2517 | 2.346244 | CGTGGCATCAAACAATCATTGC | 59.654 | 45.455 | 0.00 | 0.00 | 0.00 | 3.56 |
2419 | 2518 | 2.924926 | CCGTGGCATCAAACAATCATTG | 59.075 | 45.455 | 0.00 | 0.00 | 0.00 | 2.82 |
2420 | 2519 | 2.824936 | TCCGTGGCATCAAACAATCATT | 59.175 | 40.909 | 0.00 | 0.00 | 0.00 | 2.57 |
2421 | 2520 | 2.445427 | TCCGTGGCATCAAACAATCAT | 58.555 | 42.857 | 0.00 | 0.00 | 0.00 | 2.45 |
2422 | 2521 | 1.902938 | TCCGTGGCATCAAACAATCA | 58.097 | 45.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2423 | 2522 | 3.296322 | TTTCCGTGGCATCAAACAATC | 57.704 | 42.857 | 0.00 | 0.00 | 0.00 | 2.67 |
2424 | 2523 | 3.742433 | TTTTCCGTGGCATCAAACAAT | 57.258 | 38.095 | 0.00 | 0.00 | 0.00 | 2.71 |
2425 | 2524 | 3.526931 | TTTTTCCGTGGCATCAAACAA | 57.473 | 38.095 | 0.00 | 0.00 | 0.00 | 2.83 |
2464 | 2563 | 9.533831 | AGAAAATTTAACATCCACTCTAACCAT | 57.466 | 29.630 | 0.00 | 0.00 | 0.00 | 3.55 |
2465 | 2564 | 8.934023 | AGAAAATTTAACATCCACTCTAACCA | 57.066 | 30.769 | 0.00 | 0.00 | 0.00 | 3.67 |
2533 | 2632 | 9.517868 | GATCCTTTGATTCATAAGATTGGATCT | 57.482 | 33.333 | 0.00 | 0.00 | 41.50 | 2.75 |
2534 | 2633 | 9.293404 | TGATCCTTTGATTCATAAGATTGGATC | 57.707 | 33.333 | 0.00 | 0.00 | 43.63 | 3.36 |
2535 | 2634 | 9.650714 | TTGATCCTTTGATTCATAAGATTGGAT | 57.349 | 29.630 | 0.00 | 0.00 | 33.84 | 3.41 |
2536 | 2635 | 9.650714 | ATTGATCCTTTGATTCATAAGATTGGA | 57.349 | 29.630 | 9.00 | 0.00 | 0.00 | 3.53 |
2583 | 2682 | 9.989296 | TTTTATAGGATTTCTGGAGGATTGAAA | 57.011 | 29.630 | 0.00 | 0.00 | 34.75 | 2.69 |
2607 | 2706 | 9.875691 | GTAGGGCTTATTTGATTCAAAGAATTT | 57.124 | 29.630 | 16.97 | 4.05 | 40.26 | 1.82 |
2608 | 2707 | 9.034800 | TGTAGGGCTTATTTGATTCAAAGAATT | 57.965 | 29.630 | 16.97 | 4.37 | 34.74 | 2.17 |
2609 | 2708 | 8.593945 | TGTAGGGCTTATTTGATTCAAAGAAT | 57.406 | 30.769 | 16.97 | 7.38 | 34.74 | 2.40 |
2610 | 2709 | 8.593945 | ATGTAGGGCTTATTTGATTCAAAGAA | 57.406 | 30.769 | 16.05 | 16.05 | 36.76 | 2.52 |
2611 | 2710 | 9.866655 | ATATGTAGGGCTTATTTGATTCAAAGA | 57.133 | 29.630 | 16.34 | 9.88 | 36.76 | 2.52 |
2617 | 2716 | 8.960591 | GCATGTATATGTAGGGCTTATTTGATT | 58.039 | 33.333 | 1.14 | 0.00 | 36.65 | 2.57 |
2618 | 2717 | 7.557719 | GGCATGTATATGTAGGGCTTATTTGAT | 59.442 | 37.037 | 1.14 | 0.00 | 36.65 | 2.57 |
2619 | 2718 | 6.884295 | GGCATGTATATGTAGGGCTTATTTGA | 59.116 | 38.462 | 1.14 | 0.00 | 36.65 | 2.69 |
2620 | 2719 | 6.886459 | AGGCATGTATATGTAGGGCTTATTTG | 59.114 | 38.462 | 1.14 | 0.00 | 36.65 | 2.32 |
2621 | 2720 | 6.886459 | CAGGCATGTATATGTAGGGCTTATTT | 59.114 | 38.462 | 1.14 | 0.00 | 36.65 | 1.40 |
2622 | 2721 | 6.418101 | CAGGCATGTATATGTAGGGCTTATT | 58.582 | 40.000 | 1.14 | 0.00 | 36.65 | 1.40 |
2623 | 2722 | 5.630069 | GCAGGCATGTATATGTAGGGCTTAT | 60.630 | 44.000 | 0.00 | 0.00 | 36.65 | 1.73 |
2624 | 2723 | 4.323485 | GCAGGCATGTATATGTAGGGCTTA | 60.323 | 45.833 | 0.00 | 0.00 | 36.65 | 3.09 |
2625 | 2724 | 3.560025 | GCAGGCATGTATATGTAGGGCTT | 60.560 | 47.826 | 0.00 | 0.00 | 36.65 | 4.35 |
2626 | 2725 | 2.026822 | GCAGGCATGTATATGTAGGGCT | 60.027 | 50.000 | 0.00 | 0.00 | 36.65 | 5.19 |
2627 | 2726 | 2.290260 | TGCAGGCATGTATATGTAGGGC | 60.290 | 50.000 | 0.00 | 1.88 | 36.65 | 5.19 |
2628 | 2727 | 3.603532 | CTGCAGGCATGTATATGTAGGG | 58.396 | 50.000 | 5.57 | 0.00 | 36.65 | 3.53 |
2629 | 2728 | 3.603532 | CCTGCAGGCATGTATATGTAGG | 58.396 | 50.000 | 22.33 | 9.82 | 38.83 | 3.18 |
2630 | 2729 | 4.248859 | GACCTGCAGGCATGTATATGTAG | 58.751 | 47.826 | 33.06 | 3.88 | 39.32 | 2.74 |
2631 | 2730 | 3.007940 | GGACCTGCAGGCATGTATATGTA | 59.992 | 47.826 | 33.06 | 0.00 | 39.32 | 2.29 |
2632 | 2731 | 2.224621 | GGACCTGCAGGCATGTATATGT | 60.225 | 50.000 | 33.06 | 8.96 | 39.32 | 2.29 |
2633 | 2732 | 2.430465 | GGACCTGCAGGCATGTATATG | 58.570 | 52.381 | 33.06 | 5.14 | 39.32 | 1.78 |
2634 | 2733 | 1.002430 | CGGACCTGCAGGCATGTATAT | 59.998 | 52.381 | 33.06 | 10.64 | 39.32 | 0.86 |
2635 | 2734 | 0.392706 | CGGACCTGCAGGCATGTATA | 59.607 | 55.000 | 33.06 | 0.00 | 39.32 | 1.47 |
2636 | 2735 | 1.146930 | CGGACCTGCAGGCATGTAT | 59.853 | 57.895 | 33.06 | 12.34 | 39.32 | 2.29 |
2660 | 2759 | 3.813724 | CTCCTCCCCCACATGGCC | 61.814 | 72.222 | 0.00 | 0.00 | 0.00 | 5.36 |
2661 | 2760 | 0.768221 | TATCTCCTCCCCCACATGGC | 60.768 | 60.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2702 | 2801 | 4.436998 | GCGGCTGCCAGTACGAGT | 62.437 | 66.667 | 20.29 | 0.00 | 33.98 | 4.18 |
2707 | 2806 | 4.735132 | GACACGCGGCTGCCAGTA | 62.735 | 66.667 | 20.29 | 0.00 | 38.08 | 2.74 |
2773 | 2872 | 1.332375 | TCGAACGCCAGGAAAAACAAG | 59.668 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.