Multiple sequence alignment - TraesCS5B01G176900

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


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 TraesCS5B01G176900 chr5B 100.000 2546 0 0 1 2546 322911705 322909160 0.000000e+00 4702.0
1 TraesCS5B01G176900 chr5A 94.464 2276 75 19 1 2246 377180739 377178485 0.000000e+00 3458.0
2 TraesCS5B01G176900 chr5A 90.909 121 11 0 2117 2237 96427905 96428025 2.030000e-36 163.0
3 TraesCS5B01G176900 chr5D 94.224 2268 68 28 1 2235 285265890 285263653 0.000000e+00 3404.0
4 TraesCS5B01G176900 chr6B 97.945 292 6 0 2255 2546 502312717 502313008 8.130000e-140 507.0
5 TraesCS5B01G176900 chr4B 97.635 296 6 1 2251 2546 73279975 73279681 8.130000e-140 507.0
6 TraesCS5B01G176900 chr4B 97.952 293 5 1 2255 2546 449365269 449365561 8.130000e-140 507.0
7 TraesCS5B01G176900 chr4A 97.945 292 6 0 2255 2546 541677526 541677235 8.130000e-140 507.0
8 TraesCS5B01G176900 chr3D 97.945 292 6 0 2255 2546 268942688 268942979 8.130000e-140 507.0
9 TraesCS5B01G176900 chr3B 97.945 292 6 0 2255 2546 785671960 785671669 8.130000e-140 507.0
10 TraesCS5B01G176900 chr1B 97.952 293 5 1 2255 2546 326773105 326772813 8.130000e-140 507.0
11 TraesCS5B01G176900 chr1B 90.909 121 11 0 2117 2237 229239543 229239663 2.030000e-36 163.0
12 TraesCS5B01G176900 chr1A 97.945 292 6 0 2255 2546 372230818 372231109 8.130000e-140 507.0
13 TraesCS5B01G176900 chr1A 90.083 121 12 0 2117 2237 188135105 188135225 9.430000e-35 158.0
14 TraesCS5B01G176900 chr7B 97.945 292 5 1 2255 2546 428833536 428833246 2.920000e-139 505.0
15 TraesCS5B01G176900 chr4D 92.373 118 9 0 2120 2237 303078587 303078470 4.360000e-38 169.0
16 TraesCS5B01G176900 chr2D 90.909 121 11 0 2120 2240 380417331 380417211 2.030000e-36 163.0
17 TraesCS5B01G176900 chr2B 88.462 130 14 1 2130 2259 65372854 65372982 3.390000e-34 156.0
18 TraesCS5B01G176900 chr6A 88.462 130 12 3 2115 2243 346586244 346586117 1.220000e-33 154.0
19 TraesCS5B01G176900 chr7D 96.875 32 1 0 411 442 561684963 561684932 1.000000e-03 54.7


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 TraesCS5B01G176900 chr5B 322909160 322911705 2545 True 4702 4702 100.000 1 2546 1 chr5B.!!$R1 2545
1 TraesCS5B01G176900 chr5A 377178485 377180739 2254 True 3458 3458 94.464 1 2246 1 chr5A.!!$R1 2245
2 TraesCS5B01G176900 chr5D 285263653 285265890 2237 True 3404 3404 94.224 1 2235 1 chr5D.!!$R1 2234

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
990 1004 0.821711 CCCACGGTTGCCTTTCTTGA 60.822 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2463 2506 0.106868 GGCTTAATGGGCCCGTTAGT 60.107 55.0 30.68 13.74 43.49 2.24 R

All possible primers

Listed 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.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
373 377 9.875675 GCAAATTTTCACTTGCATTTATTTGTA 57.124 25.926 0.00 0.00 45.81 2.41
464 477 6.063404 ACTAAAACCACTTCCGTTATTTCCA 58.937 36.000 0.00 0.00 0.00 3.53
712 725 7.557358 TCTGATTATTGTTGTTGTATCCAGCAT 59.443 33.333 0.00 0.00 31.46 3.79
757 770 5.248640 TGCAGGTAAGGAGATGAAAGAAAG 58.751 41.667 0.00 0.00 0.00 2.62
823 836 2.553904 CCCTTCACTGGCTTTCAGATGT 60.554 50.000 0.00 0.00 46.18 3.06
834 847 3.944015 GCTTTCAGATGTCCTAACATGCT 59.056 43.478 0.00 0.00 46.20 3.79
836 849 4.558226 TTCAGATGTCCTAACATGCTGT 57.442 40.909 0.00 0.00 46.20 4.40
837 850 3.865446 TCAGATGTCCTAACATGCTGTG 58.135 45.455 0.00 0.00 46.20 3.66
876 889 3.154827 AGCAGTTTTAAGGGCTAAGCA 57.845 42.857 0.00 0.00 34.25 3.91
877 890 3.084786 AGCAGTTTTAAGGGCTAAGCAG 58.915 45.455 0.00 0.00 34.25 4.24
878 891 8.232087 TTTAGCAGTTTTAAGGGCTAAGCAGC 62.232 42.308 0.00 0.00 46.06 5.25
942 956 3.519107 TGACTGCTTGAGGACCATGAATA 59.481 43.478 0.00 0.00 0.00 1.75
990 1004 0.821711 CCCACGGTTGCCTTTCTTGA 60.822 55.000 0.00 0.00 0.00 3.02
1023 1037 1.293062 ATGGCCACTTGATCCTGTCT 58.707 50.000 8.16 0.00 0.00 3.41
1144 1164 8.120538 TGAGTAAGTATTCTTCTCCCCTCTTAA 58.879 37.037 0.00 0.00 35.36 1.85
1145 1165 9.150028 GAGTAAGTATTCTTCTCCCCTCTTAAT 57.850 37.037 0.00 0.00 35.36 1.40
1248 1269 2.282674 ACTGCATGTGGGCTGGTG 60.283 61.111 0.00 0.00 37.08 4.17
1413 1441 0.326264 AAACCTCTCGCATTGCTCCT 59.674 50.000 7.12 0.00 0.00 3.69
1415 1443 1.220206 CCTCTCGCATTGCTCCTGT 59.780 57.895 7.12 0.00 0.00 4.00
1452 1480 0.037447 AGCAGGGGAAGAAGAAGCAC 59.963 55.000 0.00 0.00 0.00 4.40
1473 1501 2.759795 GGGAGGCTGCAGAAGGTT 59.240 61.111 20.43 0.00 0.00 3.50
1611 1639 6.157645 TCATTAATTCTCTCCTGCTTTCCTCT 59.842 38.462 0.00 0.00 0.00 3.69
1621 1649 3.575687 CCTGCTTTCCTCTCCATGTTTTT 59.424 43.478 0.00 0.00 0.00 1.94
1748 1776 6.092807 GGACTAACAGTATGCTTTTTCCTCTG 59.907 42.308 0.00 0.00 42.53 3.35
1802 1832 4.202461 ACAAAGGCCTGAGTTCAGAACATA 60.202 41.667 5.69 2.98 46.59 2.29
1842 1872 3.216800 TGTTCATATGGGAGCAATCTGC 58.783 45.455 2.13 0.00 45.46 4.26
1918 1956 6.978080 ACGCATGCCTTGGTTTAATAAAATAG 59.022 34.615 13.15 0.00 0.00 1.73
2083 2125 3.930229 TGCGGTATAAAACAGTGCTGTAG 59.070 43.478 5.18 0.00 44.13 2.74
2102 2145 6.201806 GCTGTAGATTTTGTTCATCGCTAGAT 59.798 38.462 0.00 0.00 37.65 1.98
2128 2171 3.802948 ACGCCAATGGAGTTACTAGAG 57.197 47.619 2.05 0.00 29.84 2.43
2146 2189 3.521727 AGAGAGTTAGAGCTTTGGGGAA 58.478 45.455 0.00 0.00 0.00 3.97
2243 2286 1.619975 ACGAGGAGGAGGAGGAGGA 60.620 63.158 0.00 0.00 0.00 3.71
2246 2289 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
2247 2290 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
2248 2291 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
2249 2292 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
2250 2293 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
2251 2294 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
2252 2295 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
2253 2296 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
2254 2297 1.293683 GGAGGAGGAGGAGGAGGAGT 61.294 65.000 0.00 0.00 0.00 3.85
2255 2298 0.106217 GAGGAGGAGGAGGAGGAGTG 60.106 65.000 0.00 0.00 0.00 3.51
2256 2299 0.853586 AGGAGGAGGAGGAGGAGTGT 60.854 60.000 0.00 0.00 0.00 3.55
2257 2300 0.041982 GGAGGAGGAGGAGGAGTGTT 59.958 60.000 0.00 0.00 0.00 3.32
2258 2301 1.288335 GGAGGAGGAGGAGGAGTGTTA 59.712 57.143 0.00 0.00 0.00 2.41
2259 2302 2.090999 GGAGGAGGAGGAGGAGTGTTAT 60.091 54.545 0.00 0.00 0.00 1.89
2260 2303 2.962421 GAGGAGGAGGAGGAGTGTTATG 59.038 54.545 0.00 0.00 0.00 1.90
2261 2304 2.043227 GGAGGAGGAGGAGTGTTATGG 58.957 57.143 0.00 0.00 0.00 2.74
2262 2305 1.414550 GAGGAGGAGGAGTGTTATGGC 59.585 57.143 0.00 0.00 0.00 4.40
2263 2306 0.105039 GGAGGAGGAGTGTTATGGCG 59.895 60.000 0.00 0.00 0.00 5.69
2264 2307 0.530870 GAGGAGGAGTGTTATGGCGC 60.531 60.000 0.00 0.00 0.00 6.53
2265 2308 0.978146 AGGAGGAGTGTTATGGCGCT 60.978 55.000 7.64 0.00 0.00 5.92
2266 2309 0.811616 GGAGGAGTGTTATGGCGCTG 60.812 60.000 7.64 0.00 0.00 5.18
2267 2310 1.432270 GAGGAGTGTTATGGCGCTGC 61.432 60.000 7.64 0.00 37.55 5.25
2268 2311 1.450312 GGAGTGTTATGGCGCTGCT 60.450 57.895 7.64 0.00 35.03 4.24
2269 2312 0.179084 GGAGTGTTATGGCGCTGCTA 60.179 55.000 7.64 0.00 35.03 3.49
2270 2313 1.212616 GAGTGTTATGGCGCTGCTAG 58.787 55.000 7.64 0.00 0.00 3.42
2271 2314 0.824109 AGTGTTATGGCGCTGCTAGA 59.176 50.000 7.64 0.00 0.00 2.43
2272 2315 1.207089 AGTGTTATGGCGCTGCTAGAA 59.793 47.619 7.64 0.00 0.00 2.10
2273 2316 1.594862 GTGTTATGGCGCTGCTAGAAG 59.405 52.381 7.64 0.00 0.00 2.85
2274 2317 1.221414 GTTATGGCGCTGCTAGAAGG 58.779 55.000 7.64 0.00 0.00 3.46
2275 2318 1.119684 TTATGGCGCTGCTAGAAGGA 58.880 50.000 7.64 0.00 0.00 3.36
2276 2319 0.676184 TATGGCGCTGCTAGAAGGAG 59.324 55.000 7.64 0.00 36.68 3.69
2277 2320 2.037620 ATGGCGCTGCTAGAAGGAGG 62.038 60.000 7.64 0.00 33.92 4.30
2278 2321 2.107953 GCGCTGCTAGAAGGAGGG 59.892 66.667 0.00 7.93 46.69 4.30
2279 2322 2.107953 CGCTGCTAGAAGGAGGGC 59.892 66.667 0.00 0.00 39.48 5.19
2280 2323 2.107953 GCTGCTAGAAGGAGGGCG 59.892 66.667 0.00 0.00 33.92 6.13
2281 2324 2.107953 CTGCTAGAAGGAGGGCGC 59.892 66.667 0.00 0.00 29.18 6.53
2282 2325 3.781770 CTGCTAGAAGGAGGGCGCG 62.782 68.421 0.00 0.00 29.18 6.86
2283 2326 3.528370 GCTAGAAGGAGGGCGCGA 61.528 66.667 12.10 0.00 0.00 5.87
2284 2327 2.725008 CTAGAAGGAGGGCGCGAG 59.275 66.667 12.10 0.00 0.00 5.03
2285 2328 1.824329 CTAGAAGGAGGGCGCGAGA 60.824 63.158 12.10 0.00 0.00 4.04
2286 2329 1.791103 CTAGAAGGAGGGCGCGAGAG 61.791 65.000 12.10 0.00 0.00 3.20
2287 2330 4.214327 GAAGGAGGGCGCGAGAGG 62.214 72.222 12.10 0.00 0.00 3.69
2307 2350 4.778143 CGACCGGGGGCCTTTCTG 62.778 72.222 6.32 0.00 0.00 3.02
2330 2373 4.803908 GGCCGGGCAAGAGGGAAG 62.804 72.222 25.33 0.00 0.00 3.46
2331 2374 4.803908 GCCGGGCAAGAGGGAAGG 62.804 72.222 15.62 0.00 0.00 3.46
2332 2375 4.115199 CCGGGCAAGAGGGAAGGG 62.115 72.222 0.00 0.00 0.00 3.95
2333 2376 3.009115 CGGGCAAGAGGGAAGGGA 61.009 66.667 0.00 0.00 0.00 4.20
2334 2377 2.378634 CGGGCAAGAGGGAAGGGAT 61.379 63.158 0.00 0.00 0.00 3.85
2335 2378 1.926426 CGGGCAAGAGGGAAGGGATT 61.926 60.000 0.00 0.00 0.00 3.01
2336 2379 0.336392 GGGCAAGAGGGAAGGGATTT 59.664 55.000 0.00 0.00 0.00 2.17
2337 2380 1.686428 GGGCAAGAGGGAAGGGATTTC 60.686 57.143 0.00 0.00 34.93 2.17
2352 2395 6.782082 AGGGATTTCCTTCTTAATTCTTGC 57.218 37.500 0.00 0.00 45.47 4.01
2353 2396 6.497640 AGGGATTTCCTTCTTAATTCTTGCT 58.502 36.000 0.00 0.00 45.47 3.91
2354 2397 6.956435 AGGGATTTCCTTCTTAATTCTTGCTT 59.044 34.615 0.00 0.00 45.47 3.91
2355 2398 7.038048 GGGATTTCCTTCTTAATTCTTGCTTG 58.962 38.462 0.00 0.00 35.95 4.01
2356 2399 7.093771 GGGATTTCCTTCTTAATTCTTGCTTGA 60.094 37.037 0.00 0.00 35.95 3.02
2357 2400 8.473219 GGATTTCCTTCTTAATTCTTGCTTGAT 58.527 33.333 0.00 0.00 0.00 2.57
2358 2401 9.866798 GATTTCCTTCTTAATTCTTGCTTGATT 57.133 29.630 0.00 0.00 0.00 2.57
2361 2404 9.739276 TTCCTTCTTAATTCTTGCTTGATTAGA 57.261 29.630 0.00 0.00 0.00 2.10
2362 2405 9.911788 TCCTTCTTAATTCTTGCTTGATTAGAT 57.088 29.630 0.00 0.00 0.00 1.98
2372 2415 9.842775 TTCTTGCTTGATTAGATTGATACATCT 57.157 29.630 0.00 0.00 0.00 2.90
2373 2416 9.486497 TCTTGCTTGATTAGATTGATACATCTC 57.514 33.333 0.00 0.00 0.00 2.75
2374 2417 8.613060 TTGCTTGATTAGATTGATACATCTCC 57.387 34.615 0.00 0.00 0.00 3.71
2375 2418 7.971201 TGCTTGATTAGATTGATACATCTCCT 58.029 34.615 0.00 0.00 0.00 3.69
2376 2419 8.093307 TGCTTGATTAGATTGATACATCTCCTC 58.907 37.037 0.00 0.00 0.00 3.71
2377 2420 8.313292 GCTTGATTAGATTGATACATCTCCTCT 58.687 37.037 0.00 0.00 0.00 3.69
2378 2421 9.859427 CTTGATTAGATTGATACATCTCCTCTC 57.141 37.037 0.00 0.00 0.00 3.20
2379 2422 9.599056 TTGATTAGATTGATACATCTCCTCTCT 57.401 33.333 0.00 0.00 0.00 3.10
2380 2423 9.599056 TGATTAGATTGATACATCTCCTCTCTT 57.401 33.333 0.00 0.00 0.00 2.85
2406 2449 7.842887 ATATAGAGAGGTTTACTTGACTCCC 57.157 40.000 0.00 0.00 0.00 4.30
2407 2450 3.858135 AGAGAGGTTTACTTGACTCCCA 58.142 45.455 0.00 0.00 0.00 4.37
2408 2451 4.232091 AGAGAGGTTTACTTGACTCCCAA 58.768 43.478 0.00 0.00 0.00 4.12
2415 2458 2.261215 CTTGACTCCCAAGCAAGGC 58.739 57.895 0.00 0.00 44.90 4.35
2416 2459 0.251077 CTTGACTCCCAAGCAAGGCT 60.251 55.000 0.00 0.00 44.90 4.58
2432 2475 3.351794 AGGCTTACTTGAACCCTAAGC 57.648 47.619 0.00 0.00 41.07 3.09
2433 2476 2.642807 AGGCTTACTTGAACCCTAAGCA 59.357 45.455 10.04 0.00 42.79 3.91
2434 2477 3.073946 AGGCTTACTTGAACCCTAAGCAA 59.926 43.478 10.04 0.00 42.79 3.91
2435 2478 3.440522 GGCTTACTTGAACCCTAAGCAAG 59.559 47.826 10.04 0.00 42.79 4.01
2436 2479 3.119814 GCTTACTTGAACCCTAAGCAAGC 60.120 47.826 6.87 6.87 43.34 4.01
2437 2480 1.523758 ACTTGAACCCTAAGCAAGCG 58.476 50.000 0.00 0.00 41.97 4.68
2438 2481 1.071699 ACTTGAACCCTAAGCAAGCGA 59.928 47.619 0.00 0.00 41.97 4.93
2439 2482 1.464997 CTTGAACCCTAAGCAAGCGAC 59.535 52.381 0.00 0.00 33.48 5.19
2440 2483 0.321298 TGAACCCTAAGCAAGCGACC 60.321 55.000 0.00 0.00 0.00 4.79
2441 2484 1.002502 AACCCTAAGCAAGCGACCC 60.003 57.895 0.00 0.00 0.00 4.46
2442 2485 1.489560 AACCCTAAGCAAGCGACCCT 61.490 55.000 0.00 0.00 0.00 4.34
2443 2486 1.299976 CCCTAAGCAAGCGACCCTT 59.700 57.895 0.00 0.00 0.00 3.95
2444 2487 0.539986 CCCTAAGCAAGCGACCCTTA 59.460 55.000 0.00 0.00 31.00 2.69
2445 2488 1.141053 CCCTAAGCAAGCGACCCTTAT 59.859 52.381 0.00 0.00 31.00 1.73
2446 2489 2.484889 CCTAAGCAAGCGACCCTTATC 58.515 52.381 0.00 0.00 31.00 1.75
2447 2490 2.103263 CCTAAGCAAGCGACCCTTATCT 59.897 50.000 0.00 0.00 31.00 1.98
2448 2491 2.317530 AAGCAAGCGACCCTTATCTC 57.682 50.000 0.00 0.00 31.00 2.75
2449 2492 1.490574 AGCAAGCGACCCTTATCTCT 58.509 50.000 0.00 0.00 31.00 3.10
2450 2493 2.667470 AGCAAGCGACCCTTATCTCTA 58.333 47.619 0.00 0.00 31.00 2.43
2451 2494 3.031736 AGCAAGCGACCCTTATCTCTAA 58.968 45.455 0.00 0.00 31.00 2.10
2452 2495 3.643792 AGCAAGCGACCCTTATCTCTAAT 59.356 43.478 0.00 0.00 31.00 1.73
2453 2496 4.101741 AGCAAGCGACCCTTATCTCTAATT 59.898 41.667 0.00 0.00 31.00 1.40
2454 2497 5.304614 AGCAAGCGACCCTTATCTCTAATTA 59.695 40.000 0.00 0.00 31.00 1.40
2455 2498 5.989777 GCAAGCGACCCTTATCTCTAATTAA 59.010 40.000 0.00 0.00 31.00 1.40
2456 2499 6.073711 GCAAGCGACCCTTATCTCTAATTAAC 60.074 42.308 0.00 0.00 31.00 2.01
2457 2500 6.099159 AGCGACCCTTATCTCTAATTAACC 57.901 41.667 0.00 0.00 0.00 2.85
2458 2501 5.011840 AGCGACCCTTATCTCTAATTAACCC 59.988 44.000 0.00 0.00 0.00 4.11
2459 2502 5.011840 GCGACCCTTATCTCTAATTAACCCT 59.988 44.000 0.00 0.00 0.00 4.34
2460 2503 6.210185 GCGACCCTTATCTCTAATTAACCCTA 59.790 42.308 0.00 0.00 0.00 3.53
2461 2504 7.256083 GCGACCCTTATCTCTAATTAACCCTAA 60.256 40.741 0.00 0.00 0.00 2.69
2462 2505 8.305317 CGACCCTTATCTCTAATTAACCCTAAG 58.695 40.741 0.00 0.00 0.00 2.18
2463 2506 9.377238 GACCCTTATCTCTAATTAACCCTAAGA 57.623 37.037 0.00 0.00 0.00 2.10
2464 2507 9.156940 ACCCTTATCTCTAATTAACCCTAAGAC 57.843 37.037 0.00 0.00 0.00 3.01
2465 2508 9.382307 CCCTTATCTCTAATTAACCCTAAGACT 57.618 37.037 0.00 0.00 0.00 3.24
2470 2513 8.230472 TCTCTAATTAACCCTAAGACTAACGG 57.770 38.462 0.00 0.00 0.00 4.44
2471 2514 7.286316 TCTCTAATTAACCCTAAGACTAACGGG 59.714 40.741 0.00 0.00 42.53 5.28
2472 2515 3.893326 TTAACCCTAAGACTAACGGGC 57.107 47.619 0.00 0.00 40.45 6.13
2473 2516 0.907486 AACCCTAAGACTAACGGGCC 59.093 55.000 0.00 0.00 40.45 5.80
2474 2517 0.979709 ACCCTAAGACTAACGGGCCC 60.980 60.000 13.57 13.57 40.45 5.80
2475 2518 0.979187 CCCTAAGACTAACGGGCCCA 60.979 60.000 24.92 0.00 0.00 5.36
2476 2519 1.129058 CCTAAGACTAACGGGCCCAT 58.871 55.000 24.92 12.98 0.00 4.00
2477 2520 1.489230 CCTAAGACTAACGGGCCCATT 59.511 52.381 24.92 17.27 0.00 3.16
2478 2521 2.701951 CCTAAGACTAACGGGCCCATTA 59.298 50.000 24.92 17.53 0.00 1.90
2479 2522 3.135167 CCTAAGACTAACGGGCCCATTAA 59.865 47.826 24.92 0.00 0.00 1.40
2480 2523 3.277142 AAGACTAACGGGCCCATTAAG 57.723 47.619 24.92 15.40 0.00 1.85
2481 2524 1.134189 AGACTAACGGGCCCATTAAGC 60.134 52.381 24.92 11.79 0.00 3.09
2489 2532 0.958822 GGCCCATTAAGCCCATTACG 59.041 55.000 0.00 0.00 45.16 3.18
2490 2533 1.687563 GCCCATTAAGCCCATTACGT 58.312 50.000 0.00 0.00 0.00 3.57
2491 2534 2.487625 GGCCCATTAAGCCCATTACGTA 60.488 50.000 0.00 0.00 45.16 3.57
2492 2535 2.551032 GCCCATTAAGCCCATTACGTAC 59.449 50.000 0.00 0.00 0.00 3.67
2493 2536 3.746432 GCCCATTAAGCCCATTACGTACT 60.746 47.826 0.00 0.00 0.00 2.73
2494 2537 4.062991 CCCATTAAGCCCATTACGTACTC 58.937 47.826 0.00 0.00 0.00 2.59
2495 2538 4.202326 CCCATTAAGCCCATTACGTACTCT 60.202 45.833 0.00 0.00 0.00 3.24
2496 2539 5.011329 CCCATTAAGCCCATTACGTACTCTA 59.989 44.000 0.00 0.00 0.00 2.43
2497 2540 6.463331 CCCATTAAGCCCATTACGTACTCTAA 60.463 42.308 0.00 0.00 0.00 2.10
2498 2541 6.423001 CCATTAAGCCCATTACGTACTCTAAC 59.577 42.308 0.00 0.00 0.00 2.34
2499 2542 6.528537 TTAAGCCCATTACGTACTCTAACA 57.471 37.500 0.00 0.00 0.00 2.41
2500 2543 4.382345 AGCCCATTACGTACTCTAACAC 57.618 45.455 0.00 0.00 0.00 3.32
2501 2544 4.021916 AGCCCATTACGTACTCTAACACT 58.978 43.478 0.00 0.00 0.00 3.55
2502 2545 5.195940 AGCCCATTACGTACTCTAACACTA 58.804 41.667 0.00 0.00 0.00 2.74
2503 2546 5.067023 AGCCCATTACGTACTCTAACACTAC 59.933 44.000 0.00 0.00 0.00 2.73
2504 2547 5.163622 GCCCATTACGTACTCTAACACTACA 60.164 44.000 0.00 0.00 0.00 2.74
2505 2548 6.261118 CCCATTACGTACTCTAACACTACAC 58.739 44.000 0.00 0.00 0.00 2.90
2506 2549 6.261118 CCATTACGTACTCTAACACTACACC 58.739 44.000 0.00 0.00 0.00 4.16
2507 2550 5.880054 TTACGTACTCTAACACTACACCC 57.120 43.478 0.00 0.00 0.00 4.61
2508 2551 3.084786 ACGTACTCTAACACTACACCCC 58.915 50.000 0.00 0.00 0.00 4.95
2509 2552 3.084039 CGTACTCTAACACTACACCCCA 58.916 50.000 0.00 0.00 0.00 4.96
2510 2553 3.119708 CGTACTCTAACACTACACCCCAC 60.120 52.174 0.00 0.00 0.00 4.61
2511 2554 2.254508 ACTCTAACACTACACCCCACC 58.745 52.381 0.00 0.00 0.00 4.61
2512 2555 2.158204 ACTCTAACACTACACCCCACCT 60.158 50.000 0.00 0.00 0.00 4.00
2513 2556 2.233922 CTCTAACACTACACCCCACCTG 59.766 54.545 0.00 0.00 0.00 4.00
2514 2557 1.278127 CTAACACTACACCCCACCTGG 59.722 57.143 0.00 0.00 0.00 4.45
2515 2558 0.400815 AACACTACACCCCACCTGGA 60.401 55.000 0.00 0.00 37.39 3.86
2516 2559 1.125711 ACACTACACCCCACCTGGAC 61.126 60.000 0.00 0.00 37.39 4.02
2517 2560 1.125093 CACTACACCCCACCTGGACA 61.125 60.000 0.00 0.00 37.39 4.02
2518 2561 0.178873 ACTACACCCCACCTGGACAT 60.179 55.000 0.00 0.00 37.39 3.06
2519 2562 0.253044 CTACACCCCACCTGGACATG 59.747 60.000 0.00 0.00 37.39 3.21
2520 2563 1.847798 TACACCCCACCTGGACATGC 61.848 60.000 0.00 0.00 37.39 4.06
2521 2564 2.858476 ACCCCACCTGGACATGCA 60.858 61.111 0.00 0.00 37.39 3.96
2522 2565 2.044650 CCCCACCTGGACATGCAG 60.045 66.667 0.00 0.00 37.39 4.41
2523 2566 2.753043 CCCACCTGGACATGCAGC 60.753 66.667 0.00 0.00 37.39 5.25
2524 2567 2.353958 CCACCTGGACATGCAGCT 59.646 61.111 0.00 0.00 37.39 4.24
2525 2568 1.303888 CCACCTGGACATGCAGCTT 60.304 57.895 0.00 0.00 37.39 3.74
2526 2569 1.592400 CCACCTGGACATGCAGCTTG 61.592 60.000 0.00 6.74 37.39 4.01
2527 2570 0.892358 CACCTGGACATGCAGCTTGT 60.892 55.000 13.58 13.58 0.00 3.16
2528 2571 0.607489 ACCTGGACATGCAGCTTGTC 60.607 55.000 26.23 26.23 42.20 3.18
2532 2575 2.084844 GACATGCAGCTTGTCCTCG 58.915 57.895 24.60 0.00 38.00 4.63
2533 2576 0.390340 GACATGCAGCTTGTCCTCGA 60.390 55.000 24.60 0.00 38.00 4.04
2534 2577 0.390866 ACATGCAGCTTGTCCTCGAG 60.391 55.000 5.13 5.13 0.00 4.04
2539 2582 2.047844 GCTTGTCCTCGAGCTGCA 60.048 61.111 6.99 2.18 45.06 4.41
2540 2583 2.099431 GCTTGTCCTCGAGCTGCAG 61.099 63.158 10.11 10.11 45.06 4.41
2541 2584 2.047844 TTGTCCTCGAGCTGCAGC 60.048 61.111 31.53 31.53 42.49 5.25
2542 2585 3.596066 TTGTCCTCGAGCTGCAGCC 62.596 63.158 34.39 23.65 43.38 4.85
2543 2586 3.768922 GTCCTCGAGCTGCAGCCT 61.769 66.667 34.39 21.60 43.38 4.58
2544 2587 2.043953 TCCTCGAGCTGCAGCCTA 60.044 61.111 34.39 18.95 43.38 3.93
2545 2588 1.682344 TCCTCGAGCTGCAGCCTAA 60.682 57.895 34.39 18.57 43.38 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 3.091545 CAGGCAATGACCAATGGTAACT 58.908 45.455 4.23 0.00 35.25 2.24
311 314 2.231964 TGATGGGAGCTTGAATTTGCAC 59.768 45.455 0.00 0.00 0.00 4.57
373 377 7.931948 CCAAACGGAGGTAGTAAATATGAATCT 59.068 37.037 0.00 0.00 0.00 2.40
464 477 2.579410 AAATGGTACTGCCTCCGTTT 57.421 45.000 0.00 0.00 37.88 3.60
712 725 4.804665 CAGTTTTGTCATGTGCATTGTTCA 59.195 37.500 0.00 0.00 0.00 3.18
757 770 0.466739 AAAACCGTGGGTGGGAGTTC 60.467 55.000 0.00 0.00 35.34 3.01
882 895 4.608774 TTTGGGGCTGCTGCTGCT 62.609 61.111 26.79 0.00 40.48 4.24
883 896 4.368543 GTTTGGGGCTGCTGCTGC 62.369 66.667 21.42 21.42 39.59 5.25
884 897 2.599578 AGTTTGGGGCTGCTGCTG 60.600 61.111 15.64 0.77 39.59 4.41
885 898 2.599578 CAGTTTGGGGCTGCTGCT 60.600 61.111 15.64 0.00 39.59 4.24
898 911 1.607148 GCTTACCAGAAAACGGCAGTT 59.393 47.619 0.00 0.00 43.50 3.16
942 956 3.456380 TTAATGGCTCCAAGAAAGGCT 57.544 42.857 0.00 0.00 39.86 4.58
990 1004 1.117142 GGCCATACATGCCCTGCAAT 61.117 55.000 0.00 0.00 43.62 3.56
1164 1185 7.154656 TGCATGCTCCTACTATTGTATTACTG 58.845 38.462 20.33 0.00 0.00 2.74
1271 1292 0.639392 AGTATCTCAGGACAGCCCCT 59.361 55.000 0.00 0.00 36.90 4.79
1377 1398 2.224793 GGTTTAGGTTCAGGTCAAGGCT 60.225 50.000 0.00 0.00 0.00 4.58
1378 1399 2.160205 GGTTTAGGTTCAGGTCAAGGC 58.840 52.381 0.00 0.00 0.00 4.35
1379 1400 3.328050 AGAGGTTTAGGTTCAGGTCAAGG 59.672 47.826 0.00 0.00 0.00 3.61
1381 1402 3.006537 CGAGAGGTTTAGGTTCAGGTCAA 59.993 47.826 0.00 0.00 0.00 3.18
1382 1403 2.561419 CGAGAGGTTTAGGTTCAGGTCA 59.439 50.000 0.00 0.00 0.00 4.02
1383 1404 2.674462 GCGAGAGGTTTAGGTTCAGGTC 60.674 54.545 0.00 0.00 0.00 3.85
1413 1441 0.323633 CCATGGCATCCACCAGAACA 60.324 55.000 0.00 0.00 44.71 3.18
1415 1443 0.256752 CTCCATGGCATCCACCAGAA 59.743 55.000 6.96 0.00 44.71 3.02
1473 1501 1.992277 GGCCTTCTGCTCCCTCAGA 60.992 63.158 0.00 0.00 40.99 3.27
1621 1649 3.582164 AGGGTAAAGGCCAATGTGAAAA 58.418 40.909 5.01 0.00 0.00 2.29
1748 1776 0.741221 AGCCGCAAAGATCGAGTTCC 60.741 55.000 0.00 0.00 0.00 3.62
1842 1872 1.743958 CTCAGAGGCCAGAAATGCAAG 59.256 52.381 5.01 0.00 0.00 4.01
1918 1956 5.841783 ACCTTTCCCTAGAGAGGATATGTTC 59.158 44.000 6.65 0.00 45.43 3.18
1923 1961 5.693321 GCACTACCTTTCCCTAGAGAGGATA 60.693 48.000 6.65 0.00 45.43 2.59
1960 1998 0.853530 AACCTTTCAGCCCCTCTTGT 59.146 50.000 0.00 0.00 0.00 3.16
2128 2171 4.827835 AGTTTTTCCCCAAAGCTCTAACTC 59.172 41.667 0.00 0.00 30.44 3.01
2146 2189 9.093970 CTTAAAACCTTTCGATTCCAAAGTTTT 57.906 29.630 10.33 10.33 33.54 2.43
2243 2286 1.501582 GCCATAACACTCCTCCTCCT 58.498 55.000 0.00 0.00 0.00 3.69
2246 2289 0.978146 AGCGCCATAACACTCCTCCT 60.978 55.000 2.29 0.00 0.00 3.69
2247 2290 0.811616 CAGCGCCATAACACTCCTCC 60.812 60.000 2.29 0.00 0.00 4.30
2248 2291 1.432270 GCAGCGCCATAACACTCCTC 61.432 60.000 2.29 0.00 0.00 3.71
2249 2292 1.450312 GCAGCGCCATAACACTCCT 60.450 57.895 2.29 0.00 0.00 3.69
2250 2293 0.179084 TAGCAGCGCCATAACACTCC 60.179 55.000 2.29 0.00 0.00 3.85
2251 2294 1.202417 TCTAGCAGCGCCATAACACTC 60.202 52.381 2.29 0.00 0.00 3.51
2252 2295 0.824109 TCTAGCAGCGCCATAACACT 59.176 50.000 2.29 0.00 0.00 3.55
2253 2296 1.594862 CTTCTAGCAGCGCCATAACAC 59.405 52.381 2.29 0.00 0.00 3.32
2254 2297 1.473257 CCTTCTAGCAGCGCCATAACA 60.473 52.381 2.29 0.00 0.00 2.41
2255 2298 1.202533 TCCTTCTAGCAGCGCCATAAC 60.203 52.381 2.29 0.00 0.00 1.89
2256 2299 1.069204 CTCCTTCTAGCAGCGCCATAA 59.931 52.381 2.29 0.00 0.00 1.90
2257 2300 0.676184 CTCCTTCTAGCAGCGCCATA 59.324 55.000 2.29 0.00 0.00 2.74
2258 2301 1.445095 CTCCTTCTAGCAGCGCCAT 59.555 57.895 2.29 0.00 0.00 4.40
2259 2302 2.725312 CCTCCTTCTAGCAGCGCCA 61.725 63.158 2.29 0.00 0.00 5.69
2260 2303 2.107953 CCTCCTTCTAGCAGCGCC 59.892 66.667 2.29 0.00 0.00 6.53
2261 2304 2.107953 CCCTCCTTCTAGCAGCGC 59.892 66.667 0.00 0.00 0.00 5.92
2262 2305 2.107953 GCCCTCCTTCTAGCAGCG 59.892 66.667 0.00 0.00 0.00 5.18
2263 2306 2.107953 CGCCCTCCTTCTAGCAGC 59.892 66.667 0.00 0.00 0.00 5.25
2264 2307 2.107953 GCGCCCTCCTTCTAGCAG 59.892 66.667 0.00 0.00 0.00 4.24
2265 2308 3.838271 CGCGCCCTCCTTCTAGCA 61.838 66.667 0.00 0.00 0.00 3.49
2266 2309 3.492311 CTCGCGCCCTCCTTCTAGC 62.492 68.421 0.00 0.00 0.00 3.42
2267 2310 1.791103 CTCTCGCGCCCTCCTTCTAG 61.791 65.000 0.00 0.00 0.00 2.43
2268 2311 1.824329 CTCTCGCGCCCTCCTTCTA 60.824 63.158 0.00 0.00 0.00 2.10
2269 2312 3.144193 CTCTCGCGCCCTCCTTCT 61.144 66.667 0.00 0.00 0.00 2.85
2270 2313 4.214327 CCTCTCGCGCCCTCCTTC 62.214 72.222 0.00 0.00 0.00 3.46
2290 2333 4.778143 CAGAAAGGCCCCCGGTCG 62.778 72.222 0.00 0.00 29.39 4.79
2313 2356 4.803908 CTTCCCTCTTGCCCGGCC 62.804 72.222 7.03 0.00 0.00 6.13
2314 2357 4.803908 CCTTCCCTCTTGCCCGGC 62.804 72.222 1.04 1.04 0.00 6.13
2315 2358 4.115199 CCCTTCCCTCTTGCCCGG 62.115 72.222 0.00 0.00 0.00 5.73
2316 2359 1.926426 AATCCCTTCCCTCTTGCCCG 61.926 60.000 0.00 0.00 0.00 6.13
2317 2360 0.336392 AAATCCCTTCCCTCTTGCCC 59.664 55.000 0.00 0.00 0.00 5.36
2318 2361 1.769026 GAAATCCCTTCCCTCTTGCC 58.231 55.000 0.00 0.00 0.00 4.52
2330 2373 6.782082 AGCAAGAATTAAGAAGGAAATCCC 57.218 37.500 0.00 0.00 36.42 3.85
2331 2374 7.830739 TCAAGCAAGAATTAAGAAGGAAATCC 58.169 34.615 0.00 0.00 0.00 3.01
2332 2375 9.866798 AATCAAGCAAGAATTAAGAAGGAAATC 57.133 29.630 0.00 0.00 0.00 2.17
2335 2378 9.739276 TCTAATCAAGCAAGAATTAAGAAGGAA 57.261 29.630 0.00 0.00 0.00 3.36
2336 2379 9.911788 ATCTAATCAAGCAAGAATTAAGAAGGA 57.088 29.630 0.00 0.00 0.00 3.36
2346 2389 9.842775 AGATGTATCAATCTAATCAAGCAAGAA 57.157 29.630 0.00 0.00 35.09 2.52
2347 2390 9.486497 GAGATGTATCAATCTAATCAAGCAAGA 57.514 33.333 0.00 0.00 37.03 3.02
2348 2391 8.719648 GGAGATGTATCAATCTAATCAAGCAAG 58.280 37.037 0.00 0.00 37.03 4.01
2349 2392 8.435187 AGGAGATGTATCAATCTAATCAAGCAA 58.565 33.333 0.00 0.00 37.03 3.91
2350 2393 7.971201 AGGAGATGTATCAATCTAATCAAGCA 58.029 34.615 0.00 0.00 37.03 3.91
2351 2394 8.313292 AGAGGAGATGTATCAATCTAATCAAGC 58.687 37.037 0.00 0.00 37.03 4.01
2352 2395 9.859427 GAGAGGAGATGTATCAATCTAATCAAG 57.141 37.037 0.00 0.00 37.03 3.02
2353 2396 9.599056 AGAGAGGAGATGTATCAATCTAATCAA 57.401 33.333 0.00 0.00 37.03 2.57
2354 2397 9.599056 AAGAGAGGAGATGTATCAATCTAATCA 57.401 33.333 0.00 0.00 37.03 2.57
2380 2423 9.364653 GGGAGTCAAGTAAACCTCTCTATATAA 57.635 37.037 0.00 0.00 0.00 0.98
2381 2424 8.508601 TGGGAGTCAAGTAAACCTCTCTATATA 58.491 37.037 0.00 0.00 0.00 0.86
2382 2425 7.363031 TGGGAGTCAAGTAAACCTCTCTATAT 58.637 38.462 0.00 0.00 0.00 0.86
2383 2426 6.738635 TGGGAGTCAAGTAAACCTCTCTATA 58.261 40.000 0.00 0.00 0.00 1.31
2384 2427 5.590818 TGGGAGTCAAGTAAACCTCTCTAT 58.409 41.667 0.00 0.00 0.00 1.98
2385 2428 5.006896 TGGGAGTCAAGTAAACCTCTCTA 57.993 43.478 0.00 0.00 0.00 2.43
2386 2429 3.858135 TGGGAGTCAAGTAAACCTCTCT 58.142 45.455 0.00 0.00 0.00 3.10
2387 2430 4.570930 CTTGGGAGTCAAGTAAACCTCTC 58.429 47.826 0.00 0.00 45.81 3.20
2388 2431 4.625607 CTTGGGAGTCAAGTAAACCTCT 57.374 45.455 0.00 0.00 45.81 3.69
2398 2441 1.846261 AGCCTTGCTTGGGAGTCAA 59.154 52.632 0.00 0.00 33.89 3.18
2399 2442 3.580084 AGCCTTGCTTGGGAGTCA 58.420 55.556 0.00 0.00 33.89 3.41
2414 2457 4.686839 CTTGCTTAGGGTTCAAGTAAGC 57.313 45.455 6.41 6.41 45.90 3.09
2415 2458 3.125316 CGCTTGCTTAGGGTTCAAGTAAG 59.875 47.826 8.11 8.11 44.06 2.34
2416 2459 3.071479 CGCTTGCTTAGGGTTCAAGTAA 58.929 45.455 0.00 0.00 39.36 2.24
2417 2460 2.300723 TCGCTTGCTTAGGGTTCAAGTA 59.699 45.455 0.00 0.00 39.36 2.24
2418 2461 1.071699 TCGCTTGCTTAGGGTTCAAGT 59.928 47.619 0.00 0.00 39.36 3.16
2419 2462 1.464997 GTCGCTTGCTTAGGGTTCAAG 59.535 52.381 0.00 0.00 39.95 3.02
2420 2463 1.519408 GTCGCTTGCTTAGGGTTCAA 58.481 50.000 4.03 0.00 37.99 2.69
2421 2464 0.321298 GGTCGCTTGCTTAGGGTTCA 60.321 55.000 4.03 0.00 37.99 3.18
2422 2465 1.025113 GGGTCGCTTGCTTAGGGTTC 61.025 60.000 4.03 0.69 37.99 3.62
2423 2466 1.002502 GGGTCGCTTGCTTAGGGTT 60.003 57.895 4.03 0.00 37.99 4.11
2424 2467 1.489560 AAGGGTCGCTTGCTTAGGGT 61.490 55.000 0.57 0.00 37.99 4.34
2425 2468 0.539986 TAAGGGTCGCTTGCTTAGGG 59.460 55.000 12.19 0.00 38.13 3.53
2426 2469 2.103263 AGATAAGGGTCGCTTGCTTAGG 59.897 50.000 12.19 0.00 0.00 2.69
2427 2470 3.068873 AGAGATAAGGGTCGCTTGCTTAG 59.931 47.826 12.19 0.00 0.00 2.18
2428 2471 3.031736 AGAGATAAGGGTCGCTTGCTTA 58.968 45.455 12.19 0.00 0.00 3.09
2429 2472 1.834263 AGAGATAAGGGTCGCTTGCTT 59.166 47.619 12.19 0.00 0.00 3.91
2430 2473 1.490574 AGAGATAAGGGTCGCTTGCT 58.509 50.000 12.19 9.05 0.00 3.91
2431 2474 3.454371 TTAGAGATAAGGGTCGCTTGC 57.546 47.619 12.19 4.62 30.69 4.01
2432 2475 6.424207 GGTTAATTAGAGATAAGGGTCGCTTG 59.576 42.308 12.19 0.00 30.69 4.01
2433 2476 6.464039 GGGTTAATTAGAGATAAGGGTCGCTT 60.464 42.308 7.38 7.38 30.69 4.68
2434 2477 5.011840 GGGTTAATTAGAGATAAGGGTCGCT 59.988 44.000 0.00 0.00 32.84 4.93
2435 2478 5.011840 AGGGTTAATTAGAGATAAGGGTCGC 59.988 44.000 0.00 0.00 0.00 5.19
2436 2479 6.667558 AGGGTTAATTAGAGATAAGGGTCG 57.332 41.667 0.00 0.00 0.00 4.79
2437 2480 9.377238 TCTTAGGGTTAATTAGAGATAAGGGTC 57.623 37.037 8.51 0.00 0.00 4.46
2438 2481 9.156940 GTCTTAGGGTTAATTAGAGATAAGGGT 57.843 37.037 8.51 0.00 0.00 4.34
2439 2482 9.382307 AGTCTTAGGGTTAATTAGAGATAAGGG 57.618 37.037 8.51 0.00 0.00 3.95
2444 2487 8.858094 CCGTTAGTCTTAGGGTTAATTAGAGAT 58.142 37.037 0.00 0.00 0.00 2.75
2445 2488 7.286316 CCCGTTAGTCTTAGGGTTAATTAGAGA 59.714 40.741 0.00 0.00 39.05 3.10
2446 2489 7.432059 CCCGTTAGTCTTAGGGTTAATTAGAG 58.568 42.308 0.00 0.00 39.05 2.43
2447 2490 6.183360 GCCCGTTAGTCTTAGGGTTAATTAGA 60.183 42.308 1.07 0.00 45.48 2.10
2448 2491 5.987953 GCCCGTTAGTCTTAGGGTTAATTAG 59.012 44.000 1.07 0.00 45.48 1.73
2449 2492 5.163311 GGCCCGTTAGTCTTAGGGTTAATTA 60.163 44.000 0.00 0.00 45.48 1.40
2450 2493 4.384537 GGCCCGTTAGTCTTAGGGTTAATT 60.385 45.833 0.00 0.00 45.48 1.40
2451 2494 3.135348 GGCCCGTTAGTCTTAGGGTTAAT 59.865 47.826 0.00 0.00 45.48 1.40
2452 2495 2.501316 GGCCCGTTAGTCTTAGGGTTAA 59.499 50.000 0.00 0.00 45.48 2.01
2453 2496 2.110578 GGCCCGTTAGTCTTAGGGTTA 58.889 52.381 0.00 0.00 45.48 2.85
2454 2497 0.907486 GGCCCGTTAGTCTTAGGGTT 59.093 55.000 0.00 0.00 45.48 4.11
2455 2498 0.979709 GGGCCCGTTAGTCTTAGGGT 60.980 60.000 5.69 0.00 45.48 4.34
2456 2499 0.979187 TGGGCCCGTTAGTCTTAGGG 60.979 60.000 19.37 0.00 46.44 3.53
2457 2500 1.129058 ATGGGCCCGTTAGTCTTAGG 58.871 55.000 19.37 0.00 0.00 2.69
2458 2501 4.377897 CTTAATGGGCCCGTTAGTCTTAG 58.622 47.826 30.68 22.55 0.00 2.18
2459 2502 3.432608 GCTTAATGGGCCCGTTAGTCTTA 60.433 47.826 30.68 18.08 0.00 2.10
2460 2503 2.682858 GCTTAATGGGCCCGTTAGTCTT 60.683 50.000 30.68 12.28 0.00 3.01
2461 2504 1.134189 GCTTAATGGGCCCGTTAGTCT 60.134 52.381 30.68 13.01 0.00 3.24
2462 2505 1.306148 GCTTAATGGGCCCGTTAGTC 58.694 55.000 30.68 23.10 0.00 2.59
2463 2506 0.106868 GGCTTAATGGGCCCGTTAGT 60.107 55.000 30.68 13.74 43.49 2.24
2464 2507 2.715536 GGCTTAATGGGCCCGTTAG 58.284 57.895 30.68 24.97 43.49 2.34
2465 2508 4.991024 GGCTTAATGGGCCCGTTA 57.009 55.556 29.42 29.42 43.49 3.18
2471 2514 1.687563 ACGTAATGGGCTTAATGGGC 58.312 50.000 0.00 0.00 0.00 5.36
2472 2515 4.062991 GAGTACGTAATGGGCTTAATGGG 58.937 47.826 0.00 0.00 0.00 4.00
2473 2516 4.957296 AGAGTACGTAATGGGCTTAATGG 58.043 43.478 0.00 0.00 0.00 3.16
2474 2517 6.982141 TGTTAGAGTACGTAATGGGCTTAATG 59.018 38.462 0.00 0.00 0.00 1.90
2475 2518 6.982724 GTGTTAGAGTACGTAATGGGCTTAAT 59.017 38.462 0.00 0.00 0.00 1.40
2476 2519 6.153340 AGTGTTAGAGTACGTAATGGGCTTAA 59.847 38.462 0.00 0.00 0.00 1.85
2477 2520 5.653769 AGTGTTAGAGTACGTAATGGGCTTA 59.346 40.000 0.00 0.00 0.00 3.09
2478 2521 4.465305 AGTGTTAGAGTACGTAATGGGCTT 59.535 41.667 0.00 0.00 0.00 4.35
2479 2522 4.021916 AGTGTTAGAGTACGTAATGGGCT 58.978 43.478 0.00 0.00 0.00 5.19
2480 2523 4.382345 AGTGTTAGAGTACGTAATGGGC 57.618 45.455 0.00 0.00 0.00 5.36
2481 2524 6.261118 GTGTAGTGTTAGAGTACGTAATGGG 58.739 44.000 0.00 0.00 33.62 4.00
2482 2525 6.261118 GGTGTAGTGTTAGAGTACGTAATGG 58.739 44.000 0.00 0.00 33.62 3.16
2483 2526 6.261118 GGGTGTAGTGTTAGAGTACGTAATG 58.739 44.000 0.00 0.00 33.62 1.90
2484 2527 5.358160 GGGGTGTAGTGTTAGAGTACGTAAT 59.642 44.000 0.00 0.00 33.62 1.89
2485 2528 4.700213 GGGGTGTAGTGTTAGAGTACGTAA 59.300 45.833 0.00 0.00 33.62 3.18
2486 2529 4.261801 GGGGTGTAGTGTTAGAGTACGTA 58.738 47.826 0.00 0.00 33.62 3.57
2487 2530 3.084786 GGGGTGTAGTGTTAGAGTACGT 58.915 50.000 0.00 0.00 33.62 3.57
2488 2531 3.084039 TGGGGTGTAGTGTTAGAGTACG 58.916 50.000 0.00 0.00 33.62 3.67
2489 2532 3.194329 GGTGGGGTGTAGTGTTAGAGTAC 59.806 52.174 0.00 0.00 0.00 2.73
2490 2533 3.076484 AGGTGGGGTGTAGTGTTAGAGTA 59.924 47.826 0.00 0.00 0.00 2.59
2491 2534 2.158204 AGGTGGGGTGTAGTGTTAGAGT 60.158 50.000 0.00 0.00 0.00 3.24
2492 2535 2.233922 CAGGTGGGGTGTAGTGTTAGAG 59.766 54.545 0.00 0.00 0.00 2.43
2493 2536 2.253610 CAGGTGGGGTGTAGTGTTAGA 58.746 52.381 0.00 0.00 0.00 2.10
2494 2537 1.278127 CCAGGTGGGGTGTAGTGTTAG 59.722 57.143 0.00 0.00 0.00 2.34
2495 2538 1.132785 TCCAGGTGGGGTGTAGTGTTA 60.133 52.381 0.00 0.00 37.22 2.41
2496 2539 0.400815 TCCAGGTGGGGTGTAGTGTT 60.401 55.000 0.00 0.00 37.22 3.32
2497 2540 1.125711 GTCCAGGTGGGGTGTAGTGT 61.126 60.000 0.00 0.00 37.22 3.55
2498 2541 1.125093 TGTCCAGGTGGGGTGTAGTG 61.125 60.000 0.00 0.00 37.22 2.74
2499 2542 0.178873 ATGTCCAGGTGGGGTGTAGT 60.179 55.000 0.00 0.00 37.22 2.73
2500 2543 0.253044 CATGTCCAGGTGGGGTGTAG 59.747 60.000 0.00 0.00 37.22 2.74
2501 2544 1.847798 GCATGTCCAGGTGGGGTGTA 61.848 60.000 0.00 0.00 37.22 2.90
2502 2545 3.170362 CATGTCCAGGTGGGGTGT 58.830 61.111 0.00 0.00 37.22 4.16
2503 2546 2.361610 GCATGTCCAGGTGGGGTG 60.362 66.667 0.00 0.00 37.22 4.61
2504 2547 2.858476 TGCATGTCCAGGTGGGGT 60.858 61.111 0.00 0.00 37.22 4.95
2505 2548 2.044650 CTGCATGTCCAGGTGGGG 60.045 66.667 0.00 0.00 37.22 4.96
2506 2549 2.753043 GCTGCATGTCCAGGTGGG 60.753 66.667 0.00 0.00 35.41 4.61
2507 2550 1.303888 AAGCTGCATGTCCAGGTGG 60.304 57.895 1.02 0.00 42.26 4.61
2508 2551 0.892358 ACAAGCTGCATGTCCAGGTG 60.892 55.000 4.45 4.06 42.26 4.00
2509 2552 0.607489 GACAAGCTGCATGTCCAGGT 60.607 55.000 23.35 0.00 44.74 4.00
2510 2553 2.177950 GACAAGCTGCATGTCCAGG 58.822 57.895 23.35 0.00 41.02 4.45
2514 2557 0.390340 TCGAGGACAAGCTGCATGTC 60.390 55.000 25.15 25.15 45.08 3.06
2515 2558 0.390866 CTCGAGGACAAGCTGCATGT 60.391 55.000 10.61 10.61 0.00 3.21
2516 2559 1.703438 GCTCGAGGACAAGCTGCATG 61.703 60.000 15.58 2.07 35.60 4.06
2517 2560 1.449246 GCTCGAGGACAAGCTGCAT 60.449 57.895 15.58 0.00 35.60 3.96
2518 2561 2.047844 GCTCGAGGACAAGCTGCA 60.048 61.111 15.58 0.00 35.60 4.41
2519 2562 2.264166 AGCTCGAGGACAAGCTGC 59.736 61.111 15.58 0.00 46.78 5.25
2522 2565 2.047844 TGCAGCTCGAGGACAAGC 60.048 61.111 15.58 7.45 38.84 4.01
2523 2566 2.099431 GCTGCAGCTCGAGGACAAG 61.099 63.158 31.33 0.00 38.21 3.16
2524 2567 2.047844 GCTGCAGCTCGAGGACAA 60.048 61.111 31.33 0.00 38.21 3.18
2525 2568 4.074526 GGCTGCAGCTCGAGGACA 62.075 66.667 35.82 0.73 41.70 4.02
2526 2569 1.949847 TTAGGCTGCAGCTCGAGGAC 61.950 60.000 35.82 18.70 41.70 3.85
2527 2570 1.682344 TTAGGCTGCAGCTCGAGGA 60.682 57.895 35.82 14.83 41.70 3.71
2528 2571 2.895680 TTAGGCTGCAGCTCGAGG 59.104 61.111 35.82 0.00 41.70 4.63


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.