Multiple sequence alignment - TraesCS6B01G382900

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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 TraesCS6B01G382900 chr6B 100.000 2513 0 0 1 2513 657982087 657984599 0.000000e+00 4641
1 TraesCS6B01G382900 chr6B 95.082 305 11 3 2210 2513 612082451 612082150 6.290000e-131 477
2 TraesCS6B01G382900 chr6B 95.050 303 12 2 2211 2513 664752771 664753070 8.140000e-130 473
3 TraesCS6B01G382900 chr6B 94.737 304 14 1 2210 2513 658001328 658001629 2.930000e-129 472
4 TraesCS6B01G382900 chr3D 94.912 2221 99 13 1 2210 551735211 551732994 0.000000e+00 3463
5 TraesCS6B01G382900 chr3D 94.813 2217 96 12 1 2210 543133964 543131760 0.000000e+00 3439
6 TraesCS6B01G382900 chr3D 94.640 2220 98 17 2 2210 360444215 360442006 0.000000e+00 3421
7 TraesCS6B01G382900 chr3D 94.142 2219 114 13 1 2210 384973376 384975587 0.000000e+00 3363
8 TraesCS6B01G382900 chr3D 94.737 304 12 3 2211 2513 379560594 379560294 1.050000e-128 470
9 TraesCS6B01G382900 chr1D 94.853 2215 103 11 1 2210 417885914 417883706 0.000000e+00 3448
10 TraesCS6B01G382900 chr5D 94.689 2222 99 17 1 2210 306886172 306883958 0.000000e+00 3432
11 TraesCS6B01G382900 chr5D 94.737 304 12 3 2211 2513 1150060 1149760 1.050000e-128 470
12 TraesCS6B01G382900 chr7D 94.587 2217 105 15 1 2209 510254732 510256941 0.000000e+00 3415
13 TraesCS6B01G382900 chr1B 94.367 2219 111 13 1 2210 487691527 487689314 0.000000e+00 3393
14 TraesCS6B01G382900 chr1B 94.737 304 13 2 2210 2513 619628500 619628800 1.050000e-128 470
15 TraesCS6B01G382900 chr2D 94.362 2217 109 15 1 2210 46525252 46527459 0.000000e+00 3387
16 TraesCS6B01G382900 chr2B 94.788 307 12 3 2208 2513 614550714 614551017 2.260000e-130 475
17 TraesCS6B01G382900 chrUn 94.737 304 13 2 2210 2513 35831656 35831356 1.050000e-128 470
18 TraesCS6B01G382900 chr3B 94.737 304 13 2 2210 2513 6472445 6472145 1.050000e-128 470


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 TraesCS6B01G382900 chr6B 657982087 657984599 2512 False 4641 4641 100.000 1 2513 1 chr6B.!!$F1 2512
1 TraesCS6B01G382900 chr3D 551732994 551735211 2217 True 3463 3463 94.912 1 2210 1 chr3D.!!$R4 2209
2 TraesCS6B01G382900 chr3D 543131760 543133964 2204 True 3439 3439 94.813 1 2210 1 chr3D.!!$R3 2209
3 TraesCS6B01G382900 chr3D 360442006 360444215 2209 True 3421 3421 94.640 2 2210 1 chr3D.!!$R1 2208
4 TraesCS6B01G382900 chr3D 384973376 384975587 2211 False 3363 3363 94.142 1 2210 1 chr3D.!!$F1 2209
5 TraesCS6B01G382900 chr1D 417883706 417885914 2208 True 3448 3448 94.853 1 2210 1 chr1D.!!$R1 2209
6 TraesCS6B01G382900 chr5D 306883958 306886172 2214 True 3432 3432 94.689 1 2210 1 chr5D.!!$R2 2209
7 TraesCS6B01G382900 chr7D 510254732 510256941 2209 False 3415 3415 94.587 1 2209 1 chr7D.!!$F1 2208
8 TraesCS6B01G382900 chr1B 487689314 487691527 2213 True 3393 3393 94.367 1 2210 1 chr1B.!!$R1 2209
9 TraesCS6B01G382900 chr2D 46525252 46527459 2207 False 3387 3387 94.362 1 2210 1 chr2D.!!$F1 2209

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
610 631 1.002659 CCAAACACCACCCGTCAGATA 59.997 52.381 0.0 0.0 0.0 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2320 2356 0.034896 TTCCACGCAAAGGAGAGTCC 59.965 55.0 0.0 0.0 36.33 3.85 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
169 174 3.658705 ACCCTCTCTCCCTATTCTACGAT 59.341 47.826 0.00 0.00 0.00 3.73
170 175 4.013728 CCCTCTCTCCCTATTCTACGATG 58.986 52.174 0.00 0.00 0.00 3.84
431 447 8.523915 TTATGGTAACTAGGTCTGATAAACGA 57.476 34.615 0.00 0.00 37.61 3.85
442 461 3.848019 TCTGATAAACGAACGAACTACGC 59.152 43.478 0.14 0.00 46.94 4.42
610 631 1.002659 CCAAACACCACCCGTCAGATA 59.997 52.381 0.00 0.00 0.00 1.98
613 634 1.860641 ACACCACCCGTCAGATATGA 58.139 50.000 0.00 0.00 0.00 2.15
617 638 1.704641 CACCCGTCAGATATGAGGGA 58.295 55.000 26.52 0.00 44.18 4.20
625 646 3.072184 GTCAGATATGAGGGAAGGCATGT 59.928 47.826 0.00 0.00 0.00 3.21
721 743 7.563188 TGCCCCACTTTACATATGAAATTGTAT 59.437 33.333 10.38 0.00 0.00 2.29
761 783 4.997395 ACCACATGTCAGTGTTATGAGTTC 59.003 41.667 13.65 0.00 37.82 3.01
795 817 6.154203 TCAAACTGCAAAATACAATGTGGA 57.846 33.333 0.00 0.00 0.00 4.02
803 825 6.703607 TGCAAAATACAATGTGGAAAATCGTT 59.296 30.769 0.00 0.00 0.00 3.85
836 858 2.965147 CCCTTCTCCTCTTCTCCATCTC 59.035 54.545 0.00 0.00 0.00 2.75
839 861 2.649190 TCTCCTCTTCTCCATCTCACG 58.351 52.381 0.00 0.00 0.00 4.35
851 873 2.419990 CCATCTCACGGACAAAGGCATA 60.420 50.000 0.00 0.00 0.00 3.14
962 986 1.032657 ATGTCGACCTCCTCGTCAGG 61.033 60.000 14.12 0.00 42.48 3.86
992 1016 2.987125 GTGGCCGGTGTATGGTCT 59.013 61.111 1.90 0.00 30.50 3.85
1131 1155 1.414550 GAGGGGCAGGTTAGATCTGAC 59.585 57.143 9.10 9.10 39.46 3.51
1253 1278 4.322080 TCGAGTGGATGGATGATTACAC 57.678 45.455 0.00 0.00 0.00 2.90
1304 1329 1.227102 CGAGGGGGAATGCAATCCA 59.773 57.895 22.22 0.00 41.55 3.41
1312 1337 2.827921 GGGAATGCAATCCACAAGTTCT 59.172 45.455 22.22 0.00 41.55 3.01
1367 1392 1.362717 CGCGTCCAGAATACCCGAT 59.637 57.895 0.00 0.00 0.00 4.18
1391 1416 4.142138 GGTGGTAGATGTCGAACTGAAGAT 60.142 45.833 0.00 0.00 0.00 2.40
1413 1438 8.591114 AGATGGAATTGAAGAAGATGAACAAT 57.409 30.769 0.00 0.00 33.50 2.71
1546 1571 7.499563 TGTTTACTGTTGTTGCCACTATTTAGA 59.500 33.333 0.00 0.00 0.00 2.10
1587 1612 5.822519 TCTCAAATGCAACTCTGTTTAGTGT 59.177 36.000 0.00 0.00 32.33 3.55
1687 1712 9.778993 CAGTTCAGTGATAGGATTATTTTGTTG 57.221 33.333 0.00 0.00 0.00 3.33
1700 1725 8.691797 GGATTATTTTGTTGGCTAATAACCTCA 58.308 33.333 0.00 0.00 29.43 3.86
1733 1758 2.373335 ACCCTAGCTCGTCAGATGAT 57.627 50.000 0.00 0.00 0.00 2.45
1739 1764 5.650266 CCCTAGCTCGTCAGATGATAGTAAT 59.350 44.000 0.00 0.00 0.00 1.89
1753 1778 8.918116 AGATGATAGTAATCAGTACTTGAGCAA 58.082 33.333 0.00 0.00 45.17 3.91
1803 1828 1.202639 TCTCTCTCGCACTTGCCAAAA 60.203 47.619 0.00 0.00 37.91 2.44
1912 1939 2.683211 AATGAGGCCCAGAAACAAGT 57.317 45.000 0.00 0.00 0.00 3.16
2013 2047 7.772757 ACCAATCTCTTCTATTTCATTGAGGAC 59.227 37.037 0.00 0.00 0.00 3.85
2077 2113 5.545658 TTTGATTTCTCTTCACCGTATGC 57.454 39.130 0.00 0.00 0.00 3.14
2117 2153 1.327303 CAACCTGGCTTAGTTTGGCA 58.673 50.000 0.00 0.00 38.31 4.92
2129 2165 6.086871 GCTTAGTTTGGCAGTGAAGTAATTC 58.913 40.000 0.00 0.00 0.00 2.17
2184 2220 2.596904 TGCCTAGCGAACCAATACTC 57.403 50.000 0.00 0.00 0.00 2.59
2218 2254 4.234673 GGTCCAACCTGAGGGAGT 57.765 61.111 2.38 0.00 34.73 3.85
2219 2255 1.984020 GGTCCAACCTGAGGGAGTC 59.016 63.158 2.38 0.00 34.73 3.36
2220 2256 1.554583 GGTCCAACCTGAGGGAGTCC 61.555 65.000 2.38 0.00 34.73 3.85
2221 2257 3.939065 GGTCCAACCTGAGGGAGTCCT 62.939 61.905 9.58 0.00 39.93 3.85
2222 2258 0.545309 TCCAACCTGAGGGAGTCCTG 60.545 60.000 9.58 0.00 45.05 3.86
2223 2259 1.557269 CCAACCTGAGGGAGTCCTGG 61.557 65.000 9.58 9.03 45.05 4.45
2224 2260 0.545309 CAACCTGAGGGAGTCCTGGA 60.545 60.000 9.58 0.00 45.05 3.86
2225 2261 0.419459 AACCTGAGGGAGTCCTGGAT 59.581 55.000 9.58 0.00 45.05 3.41
2226 2262 0.419459 ACCTGAGGGAGTCCTGGATT 59.581 55.000 9.58 0.00 45.05 3.01
2227 2263 1.651770 ACCTGAGGGAGTCCTGGATTA 59.348 52.381 9.58 0.00 45.05 1.75
2228 2264 2.324541 CCTGAGGGAGTCCTGGATTAG 58.675 57.143 9.58 0.00 45.05 1.73
2229 2265 2.324541 CTGAGGGAGTCCTGGATTAGG 58.675 57.143 9.58 0.00 45.05 2.69
2247 2283 3.714001 GGGGGTCCTCGGACAACC 61.714 72.222 17.21 16.72 46.20 3.77
2263 2299 6.422776 GGACAACCGGATTATATGCTTATG 57.577 41.667 9.46 0.00 0.00 1.90
2264 2300 5.163754 GGACAACCGGATTATATGCTTATGC 60.164 44.000 9.46 0.00 40.20 3.14
2265 2301 4.700213 ACAACCGGATTATATGCTTATGCC 59.300 41.667 9.46 1.39 38.71 4.40
2266 2302 3.531538 ACCGGATTATATGCTTATGCCG 58.468 45.455 9.46 16.49 38.71 5.69
2268 2304 3.792401 CGGATTATATGCTTATGCCGGA 58.208 45.455 5.05 0.00 38.71 5.14
2269 2305 3.555956 CGGATTATATGCTTATGCCGGAC 59.444 47.826 5.05 0.00 38.71 4.79
2270 2306 4.680708 CGGATTATATGCTTATGCCGGACT 60.681 45.833 5.05 0.00 38.71 3.85
2271 2307 4.572389 GGATTATATGCTTATGCCGGACTG 59.428 45.833 5.05 0.00 38.71 3.51
2272 2308 4.617253 TTATATGCTTATGCCGGACTGT 57.383 40.909 5.05 0.00 38.71 3.55
2273 2309 3.492102 ATATGCTTATGCCGGACTGTT 57.508 42.857 5.05 0.00 38.71 3.16
2274 2310 1.382522 ATGCTTATGCCGGACTGTTG 58.617 50.000 5.05 0.00 38.71 3.33
2275 2311 0.676466 TGCTTATGCCGGACTGTTGG 60.676 55.000 5.05 0.00 38.71 3.77
2276 2312 0.392461 GCTTATGCCGGACTGTTGGA 60.392 55.000 5.05 0.00 0.00 3.53
2277 2313 1.369625 CTTATGCCGGACTGTTGGAC 58.630 55.000 5.05 0.00 0.00 4.02
2278 2314 0.981183 TTATGCCGGACTGTTGGACT 59.019 50.000 5.05 0.00 0.00 3.85
2279 2315 1.855295 TATGCCGGACTGTTGGACTA 58.145 50.000 5.05 0.00 0.00 2.59
2280 2316 1.204146 ATGCCGGACTGTTGGACTAT 58.796 50.000 5.05 0.00 0.00 2.12
2281 2317 0.249120 TGCCGGACTGTTGGACTATG 59.751 55.000 5.05 0.00 0.00 2.23
2282 2318 0.535335 GCCGGACTGTTGGACTATGA 59.465 55.000 5.05 0.00 0.00 2.15
2283 2319 1.066430 GCCGGACTGTTGGACTATGAA 60.066 52.381 5.05 0.00 0.00 2.57
2284 2320 2.893637 CCGGACTGTTGGACTATGAAG 58.106 52.381 0.00 0.00 0.00 3.02
2285 2321 2.496070 CCGGACTGTTGGACTATGAAGA 59.504 50.000 0.00 0.00 0.00 2.87
2286 2322 3.133003 CCGGACTGTTGGACTATGAAGAT 59.867 47.826 0.00 0.00 0.00 2.40
2287 2323 4.341235 CCGGACTGTTGGACTATGAAGATA 59.659 45.833 0.00 0.00 0.00 1.98
2288 2324 5.282510 CGGACTGTTGGACTATGAAGATAC 58.717 45.833 0.00 0.00 0.00 2.24
2289 2325 5.163550 CGGACTGTTGGACTATGAAGATACA 60.164 44.000 0.00 0.00 0.00 2.29
2290 2326 6.627287 CGGACTGTTGGACTATGAAGATACAA 60.627 42.308 0.00 0.00 0.00 2.41
2291 2327 6.758886 GGACTGTTGGACTATGAAGATACAAG 59.241 42.308 0.00 0.00 0.00 3.16
2292 2328 7.363880 GGACTGTTGGACTATGAAGATACAAGA 60.364 40.741 0.00 0.00 0.00 3.02
2293 2329 8.083828 ACTGTTGGACTATGAAGATACAAGAT 57.916 34.615 0.00 0.00 0.00 2.40
2294 2330 8.543774 ACTGTTGGACTATGAAGATACAAGATT 58.456 33.333 0.00 0.00 0.00 2.40
2295 2331 8.722480 TGTTGGACTATGAAGATACAAGATTG 57.278 34.615 0.00 0.00 0.00 2.67
2296 2332 8.539544 TGTTGGACTATGAAGATACAAGATTGA 58.460 33.333 0.00 0.00 0.00 2.57
2297 2333 9.383519 GTTGGACTATGAAGATACAAGATTGAA 57.616 33.333 0.00 0.00 0.00 2.69
2298 2334 9.605275 TTGGACTATGAAGATACAAGATTGAAG 57.395 33.333 0.00 0.00 0.00 3.02
2299 2335 8.981659 TGGACTATGAAGATACAAGATTGAAGA 58.018 33.333 0.00 0.00 0.00 2.87
2300 2336 9.255304 GGACTATGAAGATACAAGATTGAAGAC 57.745 37.037 0.00 0.00 0.00 3.01
2305 2341 9.902684 ATGAAGATACAAGATTGAAGACTTCAT 57.097 29.630 18.38 20.84 39.84 2.57
2306 2342 9.376075 TGAAGATACAAGATTGAAGACTTCATC 57.624 33.333 18.38 16.14 39.84 2.92
2307 2343 8.729805 AAGATACAAGATTGAAGACTTCATCC 57.270 34.615 18.38 12.70 39.84 3.51
2308 2344 7.278875 AGATACAAGATTGAAGACTTCATCCC 58.721 38.462 18.38 10.46 39.84 3.85
2309 2345 4.256920 ACAAGATTGAAGACTTCATCCCG 58.743 43.478 18.38 12.78 39.84 5.14
2310 2346 4.256920 CAAGATTGAAGACTTCATCCCGT 58.743 43.478 18.38 6.66 39.84 5.28
2311 2347 3.866651 AGATTGAAGACTTCATCCCGTG 58.133 45.455 18.38 0.00 39.84 4.94
2312 2348 3.261897 AGATTGAAGACTTCATCCCGTGT 59.738 43.478 18.38 0.00 39.84 4.49
2313 2349 2.743636 TGAAGACTTCATCCCGTGTC 57.256 50.000 13.99 0.00 34.08 3.67
2314 2350 1.275291 TGAAGACTTCATCCCGTGTCC 59.725 52.381 13.99 0.00 34.08 4.02
2315 2351 0.246635 AAGACTTCATCCCGTGTCCG 59.753 55.000 0.00 0.00 0.00 4.79
2329 2365 3.273654 TCCGGGTGGGACTCTCCT 61.274 66.667 0.00 0.00 40.94 3.69
2330 2366 2.284699 CCGGGTGGGACTCTCCTT 60.285 66.667 0.00 0.00 38.47 3.36
2331 2367 1.918800 CCGGGTGGGACTCTCCTTT 60.919 63.158 0.00 0.00 38.47 3.11
2332 2368 1.296715 CGGGTGGGACTCTCCTTTG 59.703 63.158 0.00 0.00 36.57 2.77
2333 2369 1.002011 GGGTGGGACTCTCCTTTGC 60.002 63.158 0.00 0.00 36.57 3.68
2334 2370 1.376037 GGTGGGACTCTCCTTTGCG 60.376 63.158 0.00 0.00 36.57 4.85
2335 2371 1.371558 GTGGGACTCTCCTTTGCGT 59.628 57.895 0.00 0.00 36.57 5.24
2336 2372 0.951040 GTGGGACTCTCCTTTGCGTG 60.951 60.000 0.00 0.00 36.57 5.34
2337 2373 1.376037 GGGACTCTCCTTTGCGTGG 60.376 63.158 0.00 0.00 36.57 4.94
2338 2374 1.671742 GGACTCTCCTTTGCGTGGA 59.328 57.895 0.00 0.00 32.53 4.02
2339 2375 0.034896 GGACTCTCCTTTGCGTGGAA 59.965 55.000 0.00 0.00 32.53 3.53
2340 2376 1.433534 GACTCTCCTTTGCGTGGAAG 58.566 55.000 0.00 0.00 32.61 3.46
2341 2377 0.035458 ACTCTCCTTTGCGTGGAAGG 59.965 55.000 7.12 7.12 44.06 3.46
2350 2386 2.956987 CGTGGAAGGCAAGCTTGG 59.043 61.111 27.10 9.80 0.00 3.61
2358 2394 4.173971 GCAAGCTTGGCAATTCGG 57.826 55.556 27.10 0.00 0.00 4.30
2359 2395 1.586028 GCAAGCTTGGCAATTCGGA 59.414 52.632 27.10 0.00 0.00 4.55
2360 2396 0.174162 GCAAGCTTGGCAATTCGGAT 59.826 50.000 27.10 0.00 0.00 4.18
2361 2397 1.405105 GCAAGCTTGGCAATTCGGATA 59.595 47.619 27.10 0.00 0.00 2.59
2362 2398 2.035066 GCAAGCTTGGCAATTCGGATAT 59.965 45.455 27.10 0.00 0.00 1.63
2363 2399 3.635331 CAAGCTTGGCAATTCGGATATG 58.365 45.455 19.14 0.00 0.00 1.78
2364 2400 2.936202 AGCTTGGCAATTCGGATATGT 58.064 42.857 0.00 0.00 0.00 2.29
2365 2401 4.085357 AGCTTGGCAATTCGGATATGTA 57.915 40.909 0.00 0.00 0.00 2.29
2366 2402 4.067896 AGCTTGGCAATTCGGATATGTAG 58.932 43.478 0.00 0.00 0.00 2.74
2367 2403 4.065088 GCTTGGCAATTCGGATATGTAGA 58.935 43.478 0.00 0.00 0.00 2.59
2368 2404 4.697352 GCTTGGCAATTCGGATATGTAGAT 59.303 41.667 0.00 0.00 0.00 1.98
2369 2405 5.182001 GCTTGGCAATTCGGATATGTAGATT 59.818 40.000 0.00 0.00 0.00 2.40
2370 2406 6.371548 GCTTGGCAATTCGGATATGTAGATTA 59.628 38.462 0.00 0.00 0.00 1.75
2371 2407 7.624344 GCTTGGCAATTCGGATATGTAGATTAC 60.624 40.741 0.00 0.00 0.00 1.89
2372 2408 6.170506 TGGCAATTCGGATATGTAGATTACC 58.829 40.000 0.00 0.00 0.00 2.85
2373 2409 6.013725 TGGCAATTCGGATATGTAGATTACCT 60.014 38.462 0.00 0.00 0.00 3.08
2374 2410 6.879458 GGCAATTCGGATATGTAGATTACCTT 59.121 38.462 0.00 0.00 0.00 3.50
2375 2411 7.064728 GGCAATTCGGATATGTAGATTACCTTC 59.935 40.741 0.00 0.00 0.00 3.46
2376 2412 7.819900 GCAATTCGGATATGTAGATTACCTTCT 59.180 37.037 0.00 0.00 0.00 2.85
2377 2413 9.360093 CAATTCGGATATGTAGATTACCTTCTC 57.640 37.037 0.00 0.00 0.00 2.87
2378 2414 8.887264 ATTCGGATATGTAGATTACCTTCTCT 57.113 34.615 0.00 0.00 0.00 3.10
2379 2415 9.976776 ATTCGGATATGTAGATTACCTTCTCTA 57.023 33.333 0.00 0.00 0.00 2.43
2380 2416 9.976776 TTCGGATATGTAGATTACCTTCTCTAT 57.023 33.333 0.00 0.00 0.00 1.98
2388 2424 9.710818 TGTAGATTACCTTCTCTATAACCAACT 57.289 33.333 0.00 0.00 0.00 3.16
2391 2427 9.495382 AGATTACCTTCTCTATAACCAACTCTT 57.505 33.333 0.00 0.00 0.00 2.85
2393 2429 9.892130 ATTACCTTCTCTATAACCAACTCTTTG 57.108 33.333 0.00 0.00 0.00 2.77
2394 2430 7.317722 ACCTTCTCTATAACCAACTCTTTGT 57.682 36.000 0.00 0.00 0.00 2.83
2395 2431 8.431910 ACCTTCTCTATAACCAACTCTTTGTA 57.568 34.615 0.00 0.00 0.00 2.41
2396 2432 8.877195 ACCTTCTCTATAACCAACTCTTTGTAA 58.123 33.333 0.00 0.00 0.00 2.41
2397 2433 9.152595 CCTTCTCTATAACCAACTCTTTGTAAC 57.847 37.037 0.00 0.00 0.00 2.50
2398 2434 9.152595 CTTCTCTATAACCAACTCTTTGTAACC 57.847 37.037 0.00 0.00 0.00 2.85
2399 2435 7.618137 TCTCTATAACCAACTCTTTGTAACCC 58.382 38.462 0.00 0.00 0.00 4.11
2400 2436 7.456902 TCTCTATAACCAACTCTTTGTAACCCT 59.543 37.037 0.00 0.00 0.00 4.34
2401 2437 8.669055 TCTATAACCAACTCTTTGTAACCCTA 57.331 34.615 0.00 0.00 0.00 3.53
2402 2438 8.755977 TCTATAACCAACTCTTTGTAACCCTAG 58.244 37.037 0.00 0.00 0.00 3.02
2403 2439 4.017177 ACCAACTCTTTGTAACCCTAGC 57.983 45.455 0.00 0.00 0.00 3.42
2404 2440 3.244805 ACCAACTCTTTGTAACCCTAGCC 60.245 47.826 0.00 0.00 0.00 3.93
2405 2441 3.344515 CAACTCTTTGTAACCCTAGCCC 58.655 50.000 0.00 0.00 0.00 5.19
2406 2442 1.914108 ACTCTTTGTAACCCTAGCCCC 59.086 52.381 0.00 0.00 0.00 5.80
2407 2443 1.212195 CTCTTTGTAACCCTAGCCCCC 59.788 57.143 0.00 0.00 0.00 5.40
2408 2444 1.203518 TCTTTGTAACCCTAGCCCCCT 60.204 52.381 0.00 0.00 0.00 4.79
2409 2445 1.212195 CTTTGTAACCCTAGCCCCCTC 59.788 57.143 0.00 0.00 0.00 4.30
2410 2446 0.622446 TTGTAACCCTAGCCCCCTCC 60.622 60.000 0.00 0.00 0.00 4.30
2411 2447 2.138831 GTAACCCTAGCCCCCTCCG 61.139 68.421 0.00 0.00 0.00 4.63
2412 2448 3.399911 TAACCCTAGCCCCCTCCGG 62.400 68.421 0.00 0.00 0.00 5.14
2414 2450 3.841353 CCCTAGCCCCCTCCGGTA 61.841 72.222 0.00 0.00 0.00 4.02
2415 2451 2.531852 CCTAGCCCCCTCCGGTAT 59.468 66.667 0.00 0.00 0.00 2.73
2416 2452 1.609794 CCTAGCCCCCTCCGGTATC 60.610 68.421 0.00 0.00 0.00 2.24
2417 2453 1.465623 CTAGCCCCCTCCGGTATCT 59.534 63.158 0.00 0.00 0.00 1.98
2418 2454 0.702902 CTAGCCCCCTCCGGTATCTA 59.297 60.000 0.00 0.00 0.00 1.98
2419 2455 1.288335 CTAGCCCCCTCCGGTATCTAT 59.712 57.143 0.00 0.00 0.00 1.98
2420 2456 1.390287 AGCCCCCTCCGGTATCTATA 58.610 55.000 0.00 0.00 0.00 1.31
2421 2457 1.938069 AGCCCCCTCCGGTATCTATAT 59.062 52.381 0.00 0.00 0.00 0.86
2422 2458 3.136896 AGCCCCCTCCGGTATCTATATA 58.863 50.000 0.00 0.00 0.00 0.86
2423 2459 3.534747 AGCCCCCTCCGGTATCTATATAA 59.465 47.826 0.00 0.00 0.00 0.98
2424 2460 4.015918 AGCCCCCTCCGGTATCTATATAAA 60.016 45.833 0.00 0.00 0.00 1.40
2425 2461 4.100653 GCCCCCTCCGGTATCTATATAAAC 59.899 50.000 0.00 0.00 0.00 2.01
2426 2462 4.652881 CCCCCTCCGGTATCTATATAAACC 59.347 50.000 0.00 0.44 0.00 3.27
2464 2500 7.178712 CGTAGGACAAGGAACAATCATAATC 57.821 40.000 0.00 0.00 0.00 1.75
2465 2501 6.761242 CGTAGGACAAGGAACAATCATAATCA 59.239 38.462 0.00 0.00 0.00 2.57
2466 2502 7.442364 CGTAGGACAAGGAACAATCATAATCAT 59.558 37.037 0.00 0.00 0.00 2.45
2467 2503 9.778741 GTAGGACAAGGAACAATCATAATCATA 57.221 33.333 0.00 0.00 0.00 2.15
2468 2504 8.915057 AGGACAAGGAACAATCATAATCATAG 57.085 34.615 0.00 0.00 0.00 2.23
2469 2505 7.941238 AGGACAAGGAACAATCATAATCATAGG 59.059 37.037 0.00 0.00 0.00 2.57
2470 2506 7.308830 GGACAAGGAACAATCATAATCATAGGC 60.309 40.741 0.00 0.00 0.00 3.93
2471 2507 7.293073 ACAAGGAACAATCATAATCATAGGCT 58.707 34.615 0.00 0.00 0.00 4.58
2472 2508 8.439971 ACAAGGAACAATCATAATCATAGGCTA 58.560 33.333 0.00 0.00 0.00 3.93
2473 2509 8.944029 CAAGGAACAATCATAATCATAGGCTAG 58.056 37.037 0.00 0.00 0.00 3.42
2474 2510 7.108847 AGGAACAATCATAATCATAGGCTAGC 58.891 38.462 6.04 6.04 0.00 3.42
2475 2511 7.037730 AGGAACAATCATAATCATAGGCTAGCT 60.038 37.037 15.72 3.22 0.00 3.32
2476 2512 7.609532 GGAACAATCATAATCATAGGCTAGCTT 59.390 37.037 15.72 10.11 0.00 3.74
2477 2513 8.558973 AACAATCATAATCATAGGCTAGCTTC 57.441 34.615 15.72 0.00 0.00 3.86
2478 2514 7.915930 ACAATCATAATCATAGGCTAGCTTCT 58.084 34.615 15.72 6.71 0.00 2.85
2479 2515 9.040259 ACAATCATAATCATAGGCTAGCTTCTA 57.960 33.333 15.72 8.91 0.00 2.10
2480 2516 9.531942 CAATCATAATCATAGGCTAGCTTCTAG 57.468 37.037 15.72 0.65 0.00 2.43
2481 2517 7.652524 TCATAATCATAGGCTAGCTTCTAGG 57.347 40.000 15.72 10.25 0.00 3.02
2482 2518 6.609212 TCATAATCATAGGCTAGCTTCTAGGG 59.391 42.308 15.72 5.58 0.00 3.53
2483 2519 2.530701 TCATAGGCTAGCTTCTAGGGC 58.469 52.381 15.72 0.00 0.00 5.19
2484 2520 2.110899 TCATAGGCTAGCTTCTAGGGCT 59.889 50.000 15.72 13.81 43.02 5.19
2485 2521 3.333980 TCATAGGCTAGCTTCTAGGGCTA 59.666 47.826 15.72 14.41 40.74 3.93
2490 2526 2.296073 TAGCTTCTAGGGCTAGCCTC 57.704 55.000 32.18 21.87 40.74 4.70
2491 2527 0.560688 AGCTTCTAGGGCTAGCCTCT 59.439 55.000 32.18 26.98 38.36 3.69
2492 2528 1.783979 AGCTTCTAGGGCTAGCCTCTA 59.216 52.381 32.18 26.68 38.36 2.43
2493 2529 1.890489 GCTTCTAGGGCTAGCCTCTAC 59.110 57.143 32.18 16.29 36.10 2.59
2494 2530 2.156098 CTTCTAGGGCTAGCCTCTACG 58.844 57.143 32.18 21.20 36.10 3.51
2495 2531 1.432056 TCTAGGGCTAGCCTCTACGA 58.568 55.000 32.18 22.65 36.10 3.43
2496 2532 1.986631 TCTAGGGCTAGCCTCTACGAT 59.013 52.381 32.18 12.45 36.10 3.73
2497 2533 2.027007 TCTAGGGCTAGCCTCTACGATC 60.027 54.545 32.18 13.65 36.10 3.69
2498 2534 0.774908 AGGGCTAGCCTCTACGATCT 59.225 55.000 32.18 15.77 36.10 2.75
2499 2535 1.146152 AGGGCTAGCCTCTACGATCTT 59.854 52.381 32.18 2.50 36.10 2.40
2500 2536 1.271102 GGGCTAGCCTCTACGATCTTG 59.729 57.143 32.18 0.00 36.10 3.02
2501 2537 1.957877 GGCTAGCCTCTACGATCTTGT 59.042 52.381 27.17 0.00 0.00 3.16
2502 2538 2.287909 GGCTAGCCTCTACGATCTTGTG 60.288 54.545 27.17 0.00 0.00 3.33
2503 2539 2.287909 GCTAGCCTCTACGATCTTGTGG 60.288 54.545 2.29 0.00 0.00 4.17
2504 2540 1.853963 AGCCTCTACGATCTTGTGGT 58.146 50.000 0.00 0.00 0.00 4.16
2505 2541 3.014304 AGCCTCTACGATCTTGTGGTA 57.986 47.619 0.00 0.00 0.00 3.25
2506 2542 2.952978 AGCCTCTACGATCTTGTGGTAG 59.047 50.000 0.00 0.00 39.64 3.18
2507 2543 2.950309 GCCTCTACGATCTTGTGGTAGA 59.050 50.000 7.08 7.08 43.28 2.59
2508 2544 3.570550 GCCTCTACGATCTTGTGGTAGAT 59.429 47.826 7.58 0.00 44.07 1.98
2509 2545 4.320641 GCCTCTACGATCTTGTGGTAGATC 60.321 50.000 7.58 0.00 44.07 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
278 288 5.363979 TGTTGTAATTCTTGCGCACATAA 57.636 34.783 11.12 4.95 0.00 1.90
376 390 1.137675 ACTCGGTATAGGGGCGTTTTC 59.862 52.381 0.00 0.00 0.00 2.29
423 439 4.812862 AAGCGTAGTTCGTTCGTTTATC 57.187 40.909 0.00 0.00 42.13 1.75
479 500 2.178580 TGACCAGATTTCAAATGGCCC 58.821 47.619 0.00 0.00 37.64 5.80
610 631 0.994247 TCACACATGCCTTCCCTCAT 59.006 50.000 0.00 0.00 0.00 2.90
613 634 0.257039 GGATCACACATGCCTTCCCT 59.743 55.000 0.00 0.00 0.00 4.20
617 638 2.108514 CGCGGATCACACATGCCTT 61.109 57.895 0.00 0.00 0.00 4.35
761 783 9.726034 GTATTTTGCAGTTTGAATATTTGAACG 57.274 29.630 8.39 0.00 0.00 3.95
795 817 8.218488 AGAAGGGGAAGCTATATTAACGATTTT 58.782 33.333 0.00 0.00 0.00 1.82
803 825 6.234404 AGAGGAGAAGGGGAAGCTATATTA 57.766 41.667 0.00 0.00 0.00 0.98
836 858 1.009829 GCTCTATGCCTTTGTCCGTG 58.990 55.000 0.00 0.00 35.15 4.94
839 861 2.698855 TCTGCTCTATGCCTTTGTCC 57.301 50.000 0.00 0.00 42.00 4.02
851 873 1.405105 GAACTGCTCGAGATCTGCTCT 59.595 52.381 18.75 0.00 41.66 4.09
1131 1155 4.954875 AGAGATAAAGGATGCGAGGAAAG 58.045 43.478 0.00 0.00 0.00 2.62
1173 1198 7.185318 TCACGTAACCTAAATCCCAAATCTA 57.815 36.000 0.00 0.00 0.00 1.98
1253 1278 0.610232 CAACCCTTGAAGCCTCTGGG 60.610 60.000 10.98 10.98 40.03 4.45
1304 1329 2.846206 TCATGGGGCAGATAGAACTTGT 59.154 45.455 0.00 0.00 0.00 3.16
1312 1337 1.630369 GGCACTATCATGGGGCAGATA 59.370 52.381 0.00 0.00 0.00 1.98
1367 1392 2.521126 TCAGTTCGACATCTACCACCA 58.479 47.619 0.00 0.00 0.00 4.17
1391 1416 9.300681 AGTTATTGTTCATCTTCTTCAATTCCA 57.699 29.630 0.00 0.00 32.27 3.53
1413 1438 6.542005 TCAACTCAATCAACTGCTTGAAGTTA 59.458 34.615 0.00 0.00 39.90 2.24
1546 1571 8.031277 GCATTTGAGATAAACAGACTTGGATTT 58.969 33.333 0.00 0.00 0.00 2.17
1587 1612 6.183360 TGCATACATTCAGAGATCGACAGTTA 60.183 38.462 0.00 0.00 0.00 2.24
1687 1712 4.585879 TCCAACACTTGAGGTTATTAGCC 58.414 43.478 0.00 0.00 0.00 3.93
1700 1725 4.040755 AGCTAGGGTATGATCCAACACTT 58.959 43.478 4.77 0.00 30.36 3.16
1733 1758 6.988522 TGTGTTGCTCAAGTACTGATTACTA 58.011 36.000 0.00 0.00 40.44 1.82
1739 1764 3.466836 CCTTGTGTTGCTCAAGTACTGA 58.533 45.455 0.00 0.00 40.15 3.41
1753 1778 6.957631 TGAACTTGATGTATATCCCTTGTGT 58.042 36.000 0.00 0.00 32.09 3.72
1803 1828 3.243771 ACTGACGAACTCGAGGACAAAAT 60.244 43.478 18.41 0.00 43.02 1.82
1927 1958 4.819630 AGAACAAAGCAATCGTTCCTAACA 59.180 37.500 0.00 0.00 39.89 2.41
1928 1959 5.358298 AGAACAAAGCAATCGTTCCTAAC 57.642 39.130 0.00 0.00 39.89 2.34
1987 2021 7.772757 GTCCTCAATGAAATAGAAGAGATTGGT 59.227 37.037 0.00 0.00 0.00 3.67
2077 2113 1.925847 TGAGCAAGCAAAACAAAAGCG 59.074 42.857 0.00 0.00 0.00 4.68
2129 2165 6.251376 GCGGTTTGCAAATACTTTGATTCTAG 59.749 38.462 16.21 0.00 43.26 2.43
2184 2220 3.010138 TGGACCTCTTTTCCCAATACTGG 59.990 47.826 0.00 0.00 43.10 4.00
2230 2266 3.714001 GGTTGTCCGAGGACCCCC 61.714 72.222 18.57 14.05 43.97 5.40
2240 2276 5.163754 GCATAAGCATATAATCCGGTTGTCC 60.164 44.000 0.00 0.00 41.58 4.02
2241 2277 5.163754 GGCATAAGCATATAATCCGGTTGTC 60.164 44.000 0.00 0.00 44.61 3.18
2242 2278 4.700213 GGCATAAGCATATAATCCGGTTGT 59.300 41.667 0.00 0.00 44.61 3.32
2243 2279 4.201812 CGGCATAAGCATATAATCCGGTTG 60.202 45.833 0.00 0.00 44.61 3.77
2244 2280 3.938963 CGGCATAAGCATATAATCCGGTT 59.061 43.478 0.00 0.00 44.61 4.44
2245 2281 3.531538 CGGCATAAGCATATAATCCGGT 58.468 45.455 0.00 0.00 44.61 5.28
2246 2282 2.872245 CCGGCATAAGCATATAATCCGG 59.128 50.000 16.00 16.00 44.61 5.14
2247 2283 3.555956 GTCCGGCATAAGCATATAATCCG 59.444 47.826 0.00 8.56 44.61 4.18
2248 2284 4.572389 CAGTCCGGCATAAGCATATAATCC 59.428 45.833 0.00 0.00 44.61 3.01
2249 2285 5.178797 ACAGTCCGGCATAAGCATATAATC 58.821 41.667 0.00 0.00 44.61 1.75
2250 2286 5.165961 ACAGTCCGGCATAAGCATATAAT 57.834 39.130 0.00 0.00 44.61 1.28
2251 2287 4.617253 ACAGTCCGGCATAAGCATATAA 57.383 40.909 0.00 0.00 44.61 0.98
2252 2288 4.314961 CAACAGTCCGGCATAAGCATATA 58.685 43.478 0.00 0.00 44.61 0.86
2253 2289 3.141398 CAACAGTCCGGCATAAGCATAT 58.859 45.455 0.00 0.00 44.61 1.78
2254 2290 2.560504 CAACAGTCCGGCATAAGCATA 58.439 47.619 0.00 0.00 44.61 3.14
2255 2291 1.382522 CAACAGTCCGGCATAAGCAT 58.617 50.000 0.00 0.00 44.61 3.79
2256 2292 0.676466 CCAACAGTCCGGCATAAGCA 60.676 55.000 0.00 0.00 44.61 3.91
2257 2293 0.392461 TCCAACAGTCCGGCATAAGC 60.392 55.000 0.00 0.00 41.10 3.09
2258 2294 1.066143 AGTCCAACAGTCCGGCATAAG 60.066 52.381 0.00 0.00 0.00 1.73
2259 2295 0.981183 AGTCCAACAGTCCGGCATAA 59.019 50.000 0.00 0.00 0.00 1.90
2260 2296 1.855295 TAGTCCAACAGTCCGGCATA 58.145 50.000 0.00 0.00 0.00 3.14
2261 2297 1.134401 CATAGTCCAACAGTCCGGCAT 60.134 52.381 0.00 0.00 0.00 4.40
2262 2298 0.249120 CATAGTCCAACAGTCCGGCA 59.751 55.000 0.00 0.00 0.00 5.69
2263 2299 0.535335 TCATAGTCCAACAGTCCGGC 59.465 55.000 0.00 0.00 0.00 6.13
2264 2300 2.496070 TCTTCATAGTCCAACAGTCCGG 59.504 50.000 0.00 0.00 0.00 5.14
2265 2301 3.868757 TCTTCATAGTCCAACAGTCCG 57.131 47.619 0.00 0.00 0.00 4.79
2266 2302 6.222038 TGTATCTTCATAGTCCAACAGTCC 57.778 41.667 0.00 0.00 0.00 3.85
2267 2303 7.548097 TCTTGTATCTTCATAGTCCAACAGTC 58.452 38.462 0.00 0.00 0.00 3.51
2268 2304 7.482169 TCTTGTATCTTCATAGTCCAACAGT 57.518 36.000 0.00 0.00 0.00 3.55
2269 2305 8.824781 CAATCTTGTATCTTCATAGTCCAACAG 58.175 37.037 0.00 0.00 0.00 3.16
2270 2306 8.539544 TCAATCTTGTATCTTCATAGTCCAACA 58.460 33.333 0.00 0.00 0.00 3.33
2271 2307 8.948631 TCAATCTTGTATCTTCATAGTCCAAC 57.051 34.615 0.00 0.00 0.00 3.77
2272 2308 9.605275 CTTCAATCTTGTATCTTCATAGTCCAA 57.395 33.333 0.00 0.00 0.00 3.53
2273 2309 8.981659 TCTTCAATCTTGTATCTTCATAGTCCA 58.018 33.333 0.00 0.00 0.00 4.02
2274 2310 9.255304 GTCTTCAATCTTGTATCTTCATAGTCC 57.745 37.037 0.00 0.00 0.00 3.85
2279 2315 9.902684 ATGAAGTCTTCAATCTTGTATCTTCAT 57.097 29.630 18.93 17.75 43.95 2.57
2280 2316 9.376075 GATGAAGTCTTCAATCTTGTATCTTCA 57.624 33.333 18.93 16.08 43.95 3.02
2281 2317 8.825745 GGATGAAGTCTTCAATCTTGTATCTTC 58.174 37.037 18.93 7.47 43.95 2.87
2282 2318 7.772757 GGGATGAAGTCTTCAATCTTGTATCTT 59.227 37.037 18.93 0.00 43.95 2.40
2283 2319 7.278875 GGGATGAAGTCTTCAATCTTGTATCT 58.721 38.462 18.93 0.00 43.95 1.98
2284 2320 6.201806 CGGGATGAAGTCTTCAATCTTGTATC 59.798 42.308 18.93 9.25 43.95 2.24
2285 2321 6.051717 CGGGATGAAGTCTTCAATCTTGTAT 58.948 40.000 18.93 0.09 43.95 2.29
2286 2322 5.046591 ACGGGATGAAGTCTTCAATCTTGTA 60.047 40.000 18.93 0.00 43.95 2.41
2287 2323 4.256920 CGGGATGAAGTCTTCAATCTTGT 58.743 43.478 18.93 1.59 43.95 3.16
2288 2324 4.093998 CACGGGATGAAGTCTTCAATCTTG 59.906 45.833 18.93 10.95 43.95 3.02
2289 2325 4.256920 CACGGGATGAAGTCTTCAATCTT 58.743 43.478 18.93 2.72 43.95 2.40
2290 2326 3.261897 ACACGGGATGAAGTCTTCAATCT 59.738 43.478 18.93 3.10 43.95 2.40
2291 2327 3.600388 ACACGGGATGAAGTCTTCAATC 58.400 45.455 18.93 15.21 43.95 2.67
2292 2328 3.600388 GACACGGGATGAAGTCTTCAAT 58.400 45.455 18.93 8.08 43.95 2.57
2293 2329 2.289444 GGACACGGGATGAAGTCTTCAA 60.289 50.000 18.93 3.54 43.95 2.69
2294 2330 1.275291 GGACACGGGATGAAGTCTTCA 59.725 52.381 17.46 17.46 45.01 3.02
2295 2331 1.736032 CGGACACGGGATGAAGTCTTC 60.736 57.143 5.58 5.58 36.18 2.87
2296 2332 0.246635 CGGACACGGGATGAAGTCTT 59.753 55.000 0.00 0.00 36.18 3.01
2297 2333 1.890894 CGGACACGGGATGAAGTCT 59.109 57.895 0.00 0.00 36.18 3.24
2298 2334 4.496670 CGGACACGGGATGAAGTC 57.503 61.111 0.00 0.00 36.18 3.01
2312 2348 2.396651 AAAGGAGAGTCCCACCCGGA 62.397 60.000 0.73 0.00 37.19 5.14
2313 2349 1.918800 AAAGGAGAGTCCCACCCGG 60.919 63.158 0.00 0.00 37.19 5.73
2314 2350 1.296715 CAAAGGAGAGTCCCACCCG 59.703 63.158 1.17 0.00 37.19 5.28
2315 2351 1.002011 GCAAAGGAGAGTCCCACCC 60.002 63.158 1.17 0.00 37.19 4.61
2316 2352 1.376037 CGCAAAGGAGAGTCCCACC 60.376 63.158 1.17 0.00 37.19 4.61
2317 2353 0.951040 CACGCAAAGGAGAGTCCCAC 60.951 60.000 1.17 0.00 37.19 4.61
2318 2354 1.371183 CACGCAAAGGAGAGTCCCA 59.629 57.895 1.17 0.00 37.19 4.37
2319 2355 1.376037 CCACGCAAAGGAGAGTCCC 60.376 63.158 0.00 0.00 37.19 4.46
2320 2356 0.034896 TTCCACGCAAAGGAGAGTCC 59.965 55.000 0.00 0.00 36.33 3.85
2321 2357 1.433534 CTTCCACGCAAAGGAGAGTC 58.566 55.000 0.00 0.00 36.33 3.36
2322 2358 0.035458 CCTTCCACGCAAAGGAGAGT 59.965 55.000 5.37 0.00 45.15 3.24
2323 2359 1.301677 GCCTTCCACGCAAAGGAGAG 61.302 60.000 13.57 3.40 45.15 3.20
2324 2360 1.302511 GCCTTCCACGCAAAGGAGA 60.303 57.895 13.57 0.00 45.15 3.71
2325 2361 1.172180 TTGCCTTCCACGCAAAGGAG 61.172 55.000 13.57 0.00 45.15 3.69
2326 2362 1.152860 TTGCCTTCCACGCAAAGGA 60.153 52.632 13.57 0.00 45.15 3.36
2327 2363 1.286880 CTTGCCTTCCACGCAAAGG 59.713 57.895 6.69 6.69 45.11 3.11
2328 2364 1.372128 GCTTGCCTTCCACGCAAAG 60.372 57.895 0.00 0.00 45.11 2.77
2329 2365 1.391157 AAGCTTGCCTTCCACGCAAA 61.391 50.000 0.00 0.00 45.11 3.68
2330 2366 1.827789 AAGCTTGCCTTCCACGCAA 60.828 52.632 0.00 0.00 43.71 4.85
2331 2367 2.203337 AAGCTTGCCTTCCACGCA 60.203 55.556 0.00 0.00 40.87 5.24
2332 2368 2.256461 CAAGCTTGCCTTCCACGC 59.744 61.111 14.65 0.00 38.87 5.34
2333 2369 2.956987 CCAAGCTTGCCTTCCACG 59.043 61.111 21.43 0.62 0.00 4.94
2334 2370 1.747325 TTGCCAAGCTTGCCTTCCAC 61.747 55.000 21.43 4.32 0.00 4.02
2335 2371 0.832983 ATTGCCAAGCTTGCCTTCCA 60.833 50.000 21.43 9.04 0.00 3.53
2336 2372 0.322648 AATTGCCAAGCTTGCCTTCC 59.677 50.000 21.43 6.63 0.00 3.46
2337 2373 1.718396 GAATTGCCAAGCTTGCCTTC 58.282 50.000 21.43 14.81 0.00 3.46
2338 2374 0.037975 CGAATTGCCAAGCTTGCCTT 60.038 50.000 21.43 10.35 0.00 4.35
2339 2375 1.588082 CGAATTGCCAAGCTTGCCT 59.412 52.632 21.43 2.43 0.00 4.75
2340 2376 1.446618 CCGAATTGCCAAGCTTGCC 60.447 57.895 21.43 11.17 0.00 4.52
2341 2377 0.174162 ATCCGAATTGCCAAGCTTGC 59.826 50.000 21.43 16.17 0.00 4.01
2342 2378 3.067180 ACATATCCGAATTGCCAAGCTTG 59.933 43.478 19.93 19.93 0.00 4.01
2343 2379 3.290710 ACATATCCGAATTGCCAAGCTT 58.709 40.909 0.00 0.00 0.00 3.74
2344 2380 2.936202 ACATATCCGAATTGCCAAGCT 58.064 42.857 0.00 0.00 0.00 3.74
2345 2381 4.065088 TCTACATATCCGAATTGCCAAGC 58.935 43.478 0.00 0.00 0.00 4.01
2346 2382 6.808008 AATCTACATATCCGAATTGCCAAG 57.192 37.500 0.00 0.00 0.00 3.61
2347 2383 6.653320 GGTAATCTACATATCCGAATTGCCAA 59.347 38.462 0.00 0.00 0.00 4.52
2348 2384 6.013725 AGGTAATCTACATATCCGAATTGCCA 60.014 38.462 0.00 0.00 0.00 4.92
2349 2385 6.407202 AGGTAATCTACATATCCGAATTGCC 58.593 40.000 0.00 0.00 0.00 4.52
2350 2386 7.819900 AGAAGGTAATCTACATATCCGAATTGC 59.180 37.037 0.00 0.00 0.00 3.56
2351 2387 9.360093 GAGAAGGTAATCTACATATCCGAATTG 57.640 37.037 0.00 0.00 0.00 2.32
2352 2388 9.315363 AGAGAAGGTAATCTACATATCCGAATT 57.685 33.333 0.00 0.00 0.00 2.17
2353 2389 8.887264 AGAGAAGGTAATCTACATATCCGAAT 57.113 34.615 0.00 0.00 0.00 3.34
2354 2390 9.976776 ATAGAGAAGGTAATCTACATATCCGAA 57.023 33.333 0.00 0.00 31.09 4.30
2362 2398 9.710818 AGTTGGTTATAGAGAAGGTAATCTACA 57.289 33.333 0.00 0.00 31.09 2.74
2365 2401 9.495382 AAGAGTTGGTTATAGAGAAGGTAATCT 57.505 33.333 0.00 0.00 0.00 2.40
2367 2403 9.892130 CAAAGAGTTGGTTATAGAGAAGGTAAT 57.108 33.333 0.00 0.00 0.00 1.89
2368 2404 8.877195 ACAAAGAGTTGGTTATAGAGAAGGTAA 58.123 33.333 0.00 0.00 39.22 2.85
2369 2405 8.431910 ACAAAGAGTTGGTTATAGAGAAGGTA 57.568 34.615 0.00 0.00 39.22 3.08
2370 2406 7.317722 ACAAAGAGTTGGTTATAGAGAAGGT 57.682 36.000 0.00 0.00 39.22 3.50
2371 2407 9.152595 GTTACAAAGAGTTGGTTATAGAGAAGG 57.847 37.037 0.00 0.00 39.22 3.46
2372 2408 9.152595 GGTTACAAAGAGTTGGTTATAGAGAAG 57.847 37.037 0.00 0.00 39.22 2.85
2373 2409 8.098912 GGGTTACAAAGAGTTGGTTATAGAGAA 58.901 37.037 0.00 0.00 39.22 2.87
2374 2410 7.456902 AGGGTTACAAAGAGTTGGTTATAGAGA 59.543 37.037 0.00 0.00 39.22 3.10
2375 2411 7.621796 AGGGTTACAAAGAGTTGGTTATAGAG 58.378 38.462 0.00 0.00 39.22 2.43
2376 2412 7.563724 AGGGTTACAAAGAGTTGGTTATAGA 57.436 36.000 0.00 0.00 39.22 1.98
2377 2413 7.494952 GCTAGGGTTACAAAGAGTTGGTTATAG 59.505 40.741 0.00 0.00 39.22 1.31
2378 2414 7.333323 GCTAGGGTTACAAAGAGTTGGTTATA 58.667 38.462 0.00 0.00 39.22 0.98
2379 2415 6.178324 GCTAGGGTTACAAAGAGTTGGTTAT 58.822 40.000 0.00 0.00 39.22 1.89
2380 2416 5.513614 GGCTAGGGTTACAAAGAGTTGGTTA 60.514 44.000 0.00 0.00 39.22 2.85
2381 2417 4.395625 GCTAGGGTTACAAAGAGTTGGTT 58.604 43.478 0.00 0.00 39.22 3.67
2382 2418 3.244805 GGCTAGGGTTACAAAGAGTTGGT 60.245 47.826 0.00 0.00 39.22 3.67
2383 2419 3.344515 GGCTAGGGTTACAAAGAGTTGG 58.655 50.000 0.00 0.00 39.22 3.77
2384 2420 3.344515 GGGCTAGGGTTACAAAGAGTTG 58.655 50.000 0.00 0.00 40.84 3.16
2385 2421 2.307980 GGGGCTAGGGTTACAAAGAGTT 59.692 50.000 0.00 0.00 0.00 3.01
2386 2422 1.914108 GGGGCTAGGGTTACAAAGAGT 59.086 52.381 0.00 0.00 0.00 3.24
2387 2423 1.212195 GGGGGCTAGGGTTACAAAGAG 59.788 57.143 0.00 0.00 0.00 2.85
2388 2424 1.203518 AGGGGGCTAGGGTTACAAAGA 60.204 52.381 0.00 0.00 0.00 2.52
2389 2425 1.212195 GAGGGGGCTAGGGTTACAAAG 59.788 57.143 0.00 0.00 0.00 2.77
2390 2426 1.292085 GAGGGGGCTAGGGTTACAAA 58.708 55.000 0.00 0.00 0.00 2.83
2391 2427 0.622446 GGAGGGGGCTAGGGTTACAA 60.622 60.000 0.00 0.00 0.00 2.41
2392 2428 1.003835 GGAGGGGGCTAGGGTTACA 59.996 63.158 0.00 0.00 0.00 2.41
2393 2429 2.138831 CGGAGGGGGCTAGGGTTAC 61.139 68.421 0.00 0.00 0.00 2.50
2394 2430 2.284493 CGGAGGGGGCTAGGGTTA 59.716 66.667 0.00 0.00 0.00 2.85
2427 2463 2.149973 TCCTACGGACTAAACCCTCC 57.850 55.000 0.00 0.00 0.00 4.30
2438 2474 2.901192 TGATTGTTCCTTGTCCTACGGA 59.099 45.455 0.00 0.00 0.00 4.69
2439 2475 3.328382 TGATTGTTCCTTGTCCTACGG 57.672 47.619 0.00 0.00 0.00 4.02
2440 2476 6.761242 TGATTATGATTGTTCCTTGTCCTACG 59.239 38.462 0.00 0.00 0.00 3.51
2441 2477 8.682936 ATGATTATGATTGTTCCTTGTCCTAC 57.317 34.615 0.00 0.00 0.00 3.18
2443 2479 7.941238 CCTATGATTATGATTGTTCCTTGTCCT 59.059 37.037 0.00 0.00 0.00 3.85
2444 2480 7.308830 GCCTATGATTATGATTGTTCCTTGTCC 60.309 40.741 0.00 0.00 0.00 4.02
2445 2481 7.446625 AGCCTATGATTATGATTGTTCCTTGTC 59.553 37.037 0.00 0.00 0.00 3.18
2446 2482 7.293073 AGCCTATGATTATGATTGTTCCTTGT 58.707 34.615 0.00 0.00 0.00 3.16
2447 2483 7.756395 AGCCTATGATTATGATTGTTCCTTG 57.244 36.000 0.00 0.00 0.00 3.61
2448 2484 7.609532 GCTAGCCTATGATTATGATTGTTCCTT 59.390 37.037 2.29 0.00 0.00 3.36
2449 2485 7.037730 AGCTAGCCTATGATTATGATTGTTCCT 60.038 37.037 12.13 0.00 0.00 3.36
2450 2486 7.108847 AGCTAGCCTATGATTATGATTGTTCC 58.891 38.462 12.13 0.00 0.00 3.62
2451 2487 8.558973 AAGCTAGCCTATGATTATGATTGTTC 57.441 34.615 12.13 0.00 0.00 3.18
2452 2488 8.381636 AGAAGCTAGCCTATGATTATGATTGTT 58.618 33.333 12.13 0.00 0.00 2.83
2453 2489 7.915930 AGAAGCTAGCCTATGATTATGATTGT 58.084 34.615 12.13 0.00 0.00 2.71
2454 2490 9.531942 CTAGAAGCTAGCCTATGATTATGATTG 57.468 37.037 12.13 0.00 0.00 2.67
2455 2491 8.703743 CCTAGAAGCTAGCCTATGATTATGATT 58.296 37.037 12.13 0.00 0.00 2.57
2456 2492 7.289782 CCCTAGAAGCTAGCCTATGATTATGAT 59.710 40.741 12.13 0.00 0.00 2.45
2457 2493 6.609212 CCCTAGAAGCTAGCCTATGATTATGA 59.391 42.308 12.13 0.00 0.00 2.15
2458 2494 6.685116 GCCCTAGAAGCTAGCCTATGATTATG 60.685 46.154 12.13 0.00 0.00 1.90
2459 2495 5.365314 GCCCTAGAAGCTAGCCTATGATTAT 59.635 44.000 12.13 0.00 0.00 1.28
2460 2496 4.712337 GCCCTAGAAGCTAGCCTATGATTA 59.288 45.833 12.13 0.00 0.00 1.75
2461 2497 3.517500 GCCCTAGAAGCTAGCCTATGATT 59.482 47.826 12.13 0.00 0.00 2.57
2462 2498 3.103742 GCCCTAGAAGCTAGCCTATGAT 58.896 50.000 12.13 0.00 0.00 2.45
2463 2499 2.110899 AGCCCTAGAAGCTAGCCTATGA 59.889 50.000 12.13 0.00 39.29 2.15
2464 2500 2.534990 AGCCCTAGAAGCTAGCCTATG 58.465 52.381 12.13 3.90 39.29 2.23
2471 2507 1.783979 AGAGGCTAGCCCTAGAAGCTA 59.216 52.381 30.42 12.26 46.60 3.32
2472 2508 0.560688 AGAGGCTAGCCCTAGAAGCT 59.439 55.000 30.42 9.06 46.60 3.74
2473 2509 1.890489 GTAGAGGCTAGCCCTAGAAGC 59.110 57.143 30.42 14.07 46.60 3.86
2474 2510 2.156098 CGTAGAGGCTAGCCCTAGAAG 58.844 57.143 30.42 18.19 46.60 2.85
2475 2511 1.773052 TCGTAGAGGCTAGCCCTAGAA 59.227 52.381 30.42 16.72 46.60 2.10
2476 2512 1.432056 TCGTAGAGGCTAGCCCTAGA 58.568 55.000 30.42 21.82 46.60 2.43
2477 2513 2.026636 AGATCGTAGAGGCTAGCCCTAG 60.027 54.545 30.42 20.32 46.60 3.02
2478 2514 1.986631 AGATCGTAGAGGCTAGCCCTA 59.013 52.381 30.42 25.09 46.60 3.53
2480 2516 1.271102 CAAGATCGTAGAGGCTAGCCC 59.729 57.143 30.42 20.74 43.63 5.19
2481 2517 1.957877 ACAAGATCGTAGAGGCTAGCC 59.042 52.381 27.19 27.19 43.63 3.93
2482 2518 2.287909 CCACAAGATCGTAGAGGCTAGC 60.288 54.545 6.04 6.04 43.63 3.42
2483 2519 2.952978 ACCACAAGATCGTAGAGGCTAG 59.047 50.000 0.00 0.00 43.63 3.42
2484 2520 3.014304 ACCACAAGATCGTAGAGGCTA 57.986 47.619 0.00 0.00 43.63 3.93
2485 2521 1.853963 ACCACAAGATCGTAGAGGCT 58.146 50.000 0.00 0.00 43.63 4.58
2486 2522 2.950309 TCTACCACAAGATCGTAGAGGC 59.050 50.000 3.99 0.00 43.63 4.70
2487 2523 5.365403 GATCTACCACAAGATCGTAGAGG 57.635 47.826 11.47 5.63 43.63 3.69


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

AutoCloner maintained by Alex Coulton.