Multiple sequence alignment - TraesCS3D01G096000

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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 TraesCS3D01G096000 chr3D 100.000 2604 0 0 1 2604 48733578 48730975 0.000000e+00 4809.0
1 TraesCS3D01G096000 chr3D 94.329 2363 81 20 7 2318 48542226 48544586 0.000000e+00 3572.0
2 TraesCS3D01G096000 chr3D 98.258 287 5 0 2318 2604 48722243 48721957 1.080000e-138 503.0
3 TraesCS3D01G096000 chr3D 97.909 287 6 0 2318 2604 142456545 142456259 5.000000e-137 497.0
4 TraesCS3D01G096000 chr3D 97.222 288 8 0 2317 2604 438017081 438016794 3.010000e-134 488.0
5 TraesCS3D01G096000 chr3D 88.732 71 5 3 129 198 591120101 591120169 1.660000e-12 84.2
6 TraesCS3D01G096000 chr3B 91.432 2346 157 18 1 2318 77314334 77316663 0.000000e+00 3179.0
7 TraesCS3D01G096000 chr3B 89.826 1612 117 16 183 1790 77349152 77350720 0.000000e+00 2025.0
8 TraesCS3D01G096000 chr3B 92.830 795 56 1 664 1457 77413602 77414396 0.000000e+00 1151.0
9 TraesCS3D01G096000 chr3B 89.564 527 40 1 1792 2318 77418462 77418973 0.000000e+00 654.0
10 TraesCS3D01G096000 chr3B 90.571 350 25 4 1446 1795 77416727 77417068 8.490000e-125 457.0
11 TraesCS3D01G096000 chr3B 87.419 310 25 6 215 516 77413250 77413553 6.900000e-91 344.0
12 TraesCS3D01G096000 chr3B 88.136 177 17 2 2093 2265 682124542 682124718 9.440000e-50 207.0
13 TraesCS3D01G096000 chr3B 88.732 71 5 3 129 198 792345062 792345130 1.660000e-12 84.2
14 TraesCS3D01G096000 chr3B 88.732 71 5 3 129 198 792435383 792435451 1.660000e-12 84.2
15 TraesCS3D01G096000 chr3B 87.324 71 6 3 129 198 793394828 793394760 7.730000e-11 78.7
16 TraesCS3D01G096000 chr3B 93.617 47 2 1 2 47 77349081 77349127 4.650000e-08 69.4
17 TraesCS3D01G096000 chr3A 91.681 1695 91 12 1 1676 60841345 60843008 0.000000e+00 2303.0
18 TraesCS3D01G096000 chr7D 97.619 294 7 0 2311 2604 540214639 540214346 2.990000e-139 505.0
19 TraesCS3D01G096000 chr7D 98.258 287 5 0 2318 2604 540205844 540205558 1.080000e-138 503.0
20 TraesCS3D01G096000 chr7D 83.983 231 31 4 2093 2319 611875815 611876043 1.570000e-52 217.0
21 TraesCS3D01G096000 chr7D 84.302 172 21 5 2152 2318 612035070 612034900 2.070000e-36 163.0
22 TraesCS3D01G096000 chr4D 98.258 287 5 0 2318 2604 365575721 365576007 1.080000e-138 503.0
23 TraesCS3D01G096000 chr4D 97.561 287 7 0 2318 2604 365584643 365584929 2.330000e-135 492.0
24 TraesCS3D01G096000 chr2D 97.561 287 7 0 2318 2604 469863173 469863459 2.330000e-135 492.0
25 TraesCS3D01G096000 chr1D 97.213 287 8 0 2318 2604 18336637 18336923 1.080000e-133 486.0
26 TraesCS3D01G096000 chr6D 74.364 1100 194 38 464 1537 51872 52909 3.140000e-104 388.0
27 TraesCS3D01G096000 chr2A 89.427 227 22 2 2093 2318 674179480 674179255 4.240000e-73 285.0
28 TraesCS3D01G096000 chr7A 85.652 230 27 3 2093 2318 702227587 702227360 1.200000e-58 237.0
29 TraesCS3D01G096000 chr5D 83.539 243 23 8 2093 2319 517444068 517443827 7.300000e-51 211.0
30 TraesCS3D01G096000 chr4B 83.193 238 25 10 2093 2319 168147178 168146945 1.220000e-48 204.0
31 TraesCS3D01G096000 chrUn 88.732 71 5 3 129 198 155032296 155032228 1.660000e-12 84.2
32 TraesCS3D01G096000 chrUn 88.732 71 5 3 129 198 352277630 352277698 1.660000e-12 84.2


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 TraesCS3D01G096000 chr3D 48730975 48733578 2603 True 4809.0 4809 100.0000 1 2604 1 chr3D.!!$R2 2603
1 TraesCS3D01G096000 chr3D 48542226 48544586 2360 False 3572.0 3572 94.3290 7 2318 1 chr3D.!!$F1 2311
2 TraesCS3D01G096000 chr3B 77314334 77316663 2329 False 3179.0 3179 91.4320 1 2318 1 chr3B.!!$F1 2317
3 TraesCS3D01G096000 chr3B 77349081 77350720 1639 False 1047.2 2025 91.7215 2 1790 2 chr3B.!!$F5 1788
4 TraesCS3D01G096000 chr3B 77413250 77418973 5723 False 651.5 1151 90.0960 215 2318 4 chr3B.!!$F6 2103
5 TraesCS3D01G096000 chr3A 60841345 60843008 1663 False 2303.0 2303 91.6810 1 1676 1 chr3A.!!$F1 1675
6 TraesCS3D01G096000 chr6D 51872 52909 1037 False 388.0 388 74.3640 464 1537 1 chr6D.!!$F1 1073

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
352 426 2.181975 CCATCAAACTCCATTGGCCTT 58.818 47.619 3.32 0.0 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2164 6027 0.402504 TTGTAATCCTGGCCGGTTGT 59.597 50.0 11.58 0.0 0.0 3.32 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
82 99 8.609176 GTTGCATATGAAATCTCGTTACCTTAA 58.391 33.333 6.97 0.00 0.00 1.85
313 387 5.963586 ACTGCGTCTTTTTAAAGAGAAAACG 59.036 36.000 9.83 10.93 45.01 3.60
335 409 7.214467 ACGTCACACATAATTTCTTTTCCAT 57.786 32.000 0.00 0.00 0.00 3.41
352 426 2.181975 CCATCAAACTCCATTGGCCTT 58.818 47.619 3.32 0.00 0.00 4.35
398 475 4.374843 TCCAATCTTGTGTATGCATTGC 57.625 40.909 3.54 0.46 0.00 3.56
623 714 7.678194 AAAAATTAGTTGTGATGTGTCAACG 57.322 32.000 0.00 0.00 45.56 4.10
727 832 6.588719 TTGCATTTCCCTTGCCATATATAC 57.411 37.500 0.00 0.00 39.39 1.47
1749 4209 2.788515 GCCTTTGGCTATACCGCAA 58.211 52.632 0.73 0.00 46.69 4.85
1872 5733 1.541147 ACCGGTGCAAAATGATGTGAG 59.459 47.619 6.12 0.00 0.00 3.51
2020 5883 2.472816 CACCTGTTTTCATGCACAACC 58.527 47.619 0.00 0.00 0.00 3.77
2149 6012 2.779506 CTCAAACCTAGCCCGACTTTT 58.220 47.619 0.00 0.00 0.00 2.27
2164 6027 6.217294 CCCGACTTTTAATTAACAAAGCCAA 58.783 36.000 8.82 0.00 33.92 4.52
2232 6095 3.686016 AGCAAAGCGGAAAGGAAGATAA 58.314 40.909 0.00 0.00 0.00 1.75
2244 6107 5.780958 AAGGAAGATAAAAGGCACTAGGT 57.219 39.130 0.00 0.00 38.49 3.08
2318 6181 1.135083 CCTACACCGACTAGCCAACTG 60.135 57.143 0.00 0.00 0.00 3.16
2319 6182 1.544691 CTACACCGACTAGCCAACTGT 59.455 52.381 0.00 0.00 0.00 3.55
2320 6183 1.624336 ACACCGACTAGCCAACTGTA 58.376 50.000 0.00 0.00 0.00 2.74
2321 6184 1.965643 ACACCGACTAGCCAACTGTAA 59.034 47.619 0.00 0.00 0.00 2.41
2322 6185 2.288640 ACACCGACTAGCCAACTGTAAC 60.289 50.000 0.00 0.00 0.00 2.50
2323 6186 1.965643 ACCGACTAGCCAACTGTAACA 59.034 47.619 0.00 0.00 0.00 2.41
2324 6187 2.288640 ACCGACTAGCCAACTGTAACAC 60.289 50.000 0.00 0.00 0.00 3.32
2325 6188 2.334838 CGACTAGCCAACTGTAACACC 58.665 52.381 0.00 0.00 0.00 4.16
2326 6189 2.696506 GACTAGCCAACTGTAACACCC 58.303 52.381 0.00 0.00 0.00 4.61
2327 6190 1.350019 ACTAGCCAACTGTAACACCCC 59.650 52.381 0.00 0.00 0.00 4.95
2328 6191 0.322322 TAGCCAACTGTAACACCCCG 59.678 55.000 0.00 0.00 0.00 5.73
2329 6192 1.969589 GCCAACTGTAACACCCCGG 60.970 63.158 0.00 0.00 0.00 5.73
2330 6193 1.452801 CCAACTGTAACACCCCGGT 59.547 57.895 0.00 0.00 0.00 5.28
2340 6203 2.404083 CACCCCGGTGTAATGATGC 58.596 57.895 5.66 0.00 40.91 3.91
2341 6204 0.107214 CACCCCGGTGTAATGATGCT 60.107 55.000 5.66 0.00 40.91 3.79
2342 6205 1.140052 CACCCCGGTGTAATGATGCTA 59.860 52.381 5.66 0.00 40.91 3.49
2343 6206 1.841277 ACCCCGGTGTAATGATGCTAA 59.159 47.619 0.00 0.00 0.00 3.09
2344 6207 2.240160 ACCCCGGTGTAATGATGCTAAA 59.760 45.455 0.00 0.00 0.00 1.85
2345 6208 2.878406 CCCCGGTGTAATGATGCTAAAG 59.122 50.000 0.00 0.00 0.00 1.85
2346 6209 3.541632 CCCGGTGTAATGATGCTAAAGT 58.458 45.455 0.00 0.00 0.00 2.66
2347 6210 4.443739 CCCCGGTGTAATGATGCTAAAGTA 60.444 45.833 0.00 0.00 0.00 2.24
2348 6211 5.120399 CCCGGTGTAATGATGCTAAAGTAA 58.880 41.667 0.00 0.00 0.00 2.24
2349 6212 5.763204 CCCGGTGTAATGATGCTAAAGTAAT 59.237 40.000 0.00 0.00 0.00 1.89
2350 6213 6.073222 CCCGGTGTAATGATGCTAAAGTAATC 60.073 42.308 0.00 0.00 0.00 1.75
2351 6214 6.073222 CCGGTGTAATGATGCTAAAGTAATCC 60.073 42.308 0.00 0.00 0.00 3.01
2352 6215 6.073222 CGGTGTAATGATGCTAAAGTAATCCC 60.073 42.308 0.00 0.00 0.00 3.85
2353 6216 6.998673 GGTGTAATGATGCTAAAGTAATCCCT 59.001 38.462 0.00 0.00 0.00 4.20
2354 6217 7.041098 GGTGTAATGATGCTAAAGTAATCCCTG 60.041 40.741 0.00 0.00 0.00 4.45
2355 6218 7.715249 GTGTAATGATGCTAAAGTAATCCCTGA 59.285 37.037 0.00 0.00 0.00 3.86
2356 6219 7.933577 TGTAATGATGCTAAAGTAATCCCTGAG 59.066 37.037 0.00 0.00 0.00 3.35
2357 6220 6.753913 ATGATGCTAAAGTAATCCCTGAGA 57.246 37.500 0.00 0.00 0.00 3.27
2358 6221 6.753913 TGATGCTAAAGTAATCCCTGAGAT 57.246 37.500 0.00 0.00 36.48 2.75
2359 6222 6.763355 TGATGCTAAAGTAATCCCTGAGATC 58.237 40.000 0.00 0.00 32.47 2.75
2360 6223 6.327365 TGATGCTAAAGTAATCCCTGAGATCA 59.673 38.462 0.00 0.00 32.47 2.92
2361 6224 6.560003 TGCTAAAGTAATCCCTGAGATCAA 57.440 37.500 0.00 0.00 32.47 2.57
2362 6225 6.586344 TGCTAAAGTAATCCCTGAGATCAAG 58.414 40.000 0.00 0.00 32.47 3.02
2363 6226 5.468409 GCTAAAGTAATCCCTGAGATCAAGC 59.532 44.000 0.00 0.00 32.47 4.01
2364 6227 5.707066 AAAGTAATCCCTGAGATCAAGCT 57.293 39.130 0.00 0.00 32.47 3.74
2365 6228 6.814954 AAAGTAATCCCTGAGATCAAGCTA 57.185 37.500 0.00 0.00 32.47 3.32
2366 6229 6.814954 AAGTAATCCCTGAGATCAAGCTAA 57.185 37.500 0.00 0.00 32.47 3.09
2367 6230 7.385894 AAGTAATCCCTGAGATCAAGCTAAT 57.614 36.000 0.00 0.00 32.47 1.73
2368 6231 7.003402 AGTAATCCCTGAGATCAAGCTAATC 57.997 40.000 0.00 0.00 32.47 1.75
2369 6232 5.901413 AATCCCTGAGATCAAGCTAATCA 57.099 39.130 10.66 0.34 32.47 2.57
2370 6233 6.451292 AATCCCTGAGATCAAGCTAATCAT 57.549 37.500 10.66 0.00 32.47 2.45
2371 6234 5.901413 TCCCTGAGATCAAGCTAATCATT 57.099 39.130 10.66 0.00 0.00 2.57
2372 6235 6.257994 TCCCTGAGATCAAGCTAATCATTT 57.742 37.500 10.66 0.00 0.00 2.32
2373 6236 6.666678 TCCCTGAGATCAAGCTAATCATTTT 58.333 36.000 10.66 0.00 0.00 1.82
2374 6237 6.544931 TCCCTGAGATCAAGCTAATCATTTTG 59.455 38.462 10.66 0.00 0.00 2.44
2375 6238 6.207213 CCTGAGATCAAGCTAATCATTTTGC 58.793 40.000 10.66 0.00 34.34 3.68
2376 6239 6.039493 CCTGAGATCAAGCTAATCATTTTGCT 59.961 38.462 10.66 0.00 44.20 3.91
2377 6240 7.228108 CCTGAGATCAAGCTAATCATTTTGCTA 59.772 37.037 10.66 0.00 42.01 3.49
2378 6241 8.687292 TGAGATCAAGCTAATCATTTTGCTAT 57.313 30.769 10.66 0.00 42.01 2.97
2379 6242 9.783081 TGAGATCAAGCTAATCATTTTGCTATA 57.217 29.630 10.66 0.00 42.01 1.31
2384 6247 9.177608 TCAAGCTAATCATTTTGCTATAACAGT 57.822 29.630 0.00 0.00 42.01 3.55
2385 6248 9.229784 CAAGCTAATCATTTTGCTATAACAGTG 57.770 33.333 0.00 0.00 42.01 3.66
2386 6249 7.420800 AGCTAATCATTTTGCTATAACAGTGC 58.579 34.615 0.00 0.00 41.23 4.40
2387 6250 7.284034 AGCTAATCATTTTGCTATAACAGTGCT 59.716 33.333 0.00 0.00 41.23 4.40
2388 6251 7.917505 GCTAATCATTTTGCTATAACAGTGCTT 59.082 33.333 0.00 0.00 31.89 3.91
2391 6254 7.921786 TCATTTTGCTATAACAGTGCTTAGT 57.078 32.000 0.00 0.00 0.00 2.24
2392 6255 7.974675 TCATTTTGCTATAACAGTGCTTAGTC 58.025 34.615 0.00 0.00 0.00 2.59
2393 6256 7.606073 TCATTTTGCTATAACAGTGCTTAGTCA 59.394 33.333 0.00 0.00 0.00 3.41
2394 6257 6.721571 TTTGCTATAACAGTGCTTAGTCAC 57.278 37.500 0.00 0.00 37.24 3.67
2396 6259 6.037786 TGCTATAACAGTGCTTAGTCACTT 57.962 37.500 6.58 0.00 44.26 3.16
2397 6260 6.464222 TGCTATAACAGTGCTTAGTCACTTT 58.536 36.000 6.58 7.51 44.26 2.66
2398 6261 7.608153 TGCTATAACAGTGCTTAGTCACTTTA 58.392 34.615 6.58 8.88 44.26 1.85
2399 6262 8.092068 TGCTATAACAGTGCTTAGTCACTTTAA 58.908 33.333 6.58 0.00 44.26 1.52
2400 6263 9.099454 GCTATAACAGTGCTTAGTCACTTTAAT 57.901 33.333 6.58 4.30 44.26 1.40
2403 6266 7.801716 AACAGTGCTTAGTCACTTTAATCAA 57.198 32.000 6.58 0.00 44.26 2.57
2404 6267 7.986085 ACAGTGCTTAGTCACTTTAATCAAT 57.014 32.000 6.58 0.00 44.26 2.57
2405 6268 9.502091 AACAGTGCTTAGTCACTTTAATCAATA 57.498 29.630 6.58 0.00 44.26 1.90
2406 6269 9.672673 ACAGTGCTTAGTCACTTTAATCAATAT 57.327 29.630 6.58 0.00 44.26 1.28
2409 6272 9.937175 GTGCTTAGTCACTTTAATCAATATTCC 57.063 33.333 0.00 0.00 34.29 3.01
2410 6273 9.679661 TGCTTAGTCACTTTAATCAATATTCCA 57.320 29.630 0.00 0.00 0.00 3.53
2426 6289 9.656040 TCAATATTCCATTTCAAATTCCAGTTG 57.344 29.630 0.00 0.00 0.00 3.16
2427 6290 9.656040 CAATATTCCATTTCAAATTCCAGTTGA 57.344 29.630 0.00 0.00 33.21 3.18
2444 6307 9.835389 TTCCAGTTGAATTCAATTTCATTTTCT 57.165 25.926 23.05 9.78 38.24 2.52
2445 6308 9.263538 TCCAGTTGAATTCAATTTCATTTTCTG 57.736 29.630 23.05 19.24 38.24 3.02
2446 6309 9.263538 CCAGTTGAATTCAATTTCATTTTCTGA 57.736 29.630 23.05 0.00 38.24 3.27
2470 6333 6.645700 GTGAAACTCAAAATTGCTCAAACA 57.354 33.333 0.00 0.00 0.00 2.83
2471 6334 7.237920 GTGAAACTCAAAATTGCTCAAACAT 57.762 32.000 0.00 0.00 0.00 2.71
2472 6335 7.121272 GTGAAACTCAAAATTGCTCAAACATG 58.879 34.615 0.00 0.00 0.00 3.21
2473 6336 7.010367 GTGAAACTCAAAATTGCTCAAACATGA 59.990 33.333 0.00 0.00 0.00 3.07
2474 6337 7.548427 TGAAACTCAAAATTGCTCAAACATGAA 59.452 29.630 0.00 0.00 0.00 2.57
2475 6338 7.846644 AACTCAAAATTGCTCAAACATGAAA 57.153 28.000 0.00 0.00 0.00 2.69
2476 6339 7.846644 ACTCAAAATTGCTCAAACATGAAAA 57.153 28.000 0.00 0.00 0.00 2.29
2477 6340 7.687445 ACTCAAAATTGCTCAAACATGAAAAC 58.313 30.769 0.00 0.00 0.00 2.43
2478 6341 7.550196 ACTCAAAATTGCTCAAACATGAAAACT 59.450 29.630 0.00 0.00 0.00 2.66
2479 6342 8.939201 TCAAAATTGCTCAAACATGAAAACTA 57.061 26.923 0.00 0.00 0.00 2.24
2480 6343 9.376075 TCAAAATTGCTCAAACATGAAAACTAA 57.624 25.926 0.00 0.00 0.00 2.24
2481 6344 9.985318 CAAAATTGCTCAAACATGAAAACTAAA 57.015 25.926 0.00 0.00 0.00 1.85
2485 6348 8.715191 TTGCTCAAACATGAAAACTAAAATGT 57.285 26.923 0.00 0.00 34.79 2.71
2486 6349 8.715191 TGCTCAAACATGAAAACTAAAATGTT 57.285 26.923 0.00 0.00 43.28 2.71
2487 6350 8.816144 TGCTCAAACATGAAAACTAAAATGTTC 58.184 29.630 0.00 0.00 41.21 3.18
2488 6351 8.816144 GCTCAAACATGAAAACTAAAATGTTCA 58.184 29.630 0.00 0.00 41.21 3.18
2496 6359 8.296799 TGAAAACTAAAATGTTCATCATGTGC 57.703 30.769 0.00 0.00 36.81 4.57
2497 6360 7.384660 TGAAAACTAAAATGTTCATCATGTGCC 59.615 33.333 0.00 0.00 36.81 5.01
2498 6361 5.981088 ACTAAAATGTTCATCATGTGCCA 57.019 34.783 0.00 0.00 36.81 4.92
2499 6362 6.343716 ACTAAAATGTTCATCATGTGCCAA 57.656 33.333 0.00 0.00 36.81 4.52
2500 6363 6.757237 ACTAAAATGTTCATCATGTGCCAAA 58.243 32.000 0.00 0.00 36.81 3.28
2501 6364 7.388437 ACTAAAATGTTCATCATGTGCCAAAT 58.612 30.769 0.00 0.00 36.81 2.32
2502 6365 8.530311 ACTAAAATGTTCATCATGTGCCAAATA 58.470 29.630 0.00 0.00 36.81 1.40
2503 6366 9.537192 CTAAAATGTTCATCATGTGCCAAATAT 57.463 29.630 0.00 0.00 36.81 1.28
2504 6367 8.795842 AAAATGTTCATCATGTGCCAAATATT 57.204 26.923 0.00 0.00 36.81 1.28
2505 6368 8.428186 AAATGTTCATCATGTGCCAAATATTC 57.572 30.769 0.00 0.00 36.81 1.75
2506 6369 5.904941 TGTTCATCATGTGCCAAATATTCC 58.095 37.500 0.00 0.00 0.00 3.01
2507 6370 5.421374 TGTTCATCATGTGCCAAATATTCCA 59.579 36.000 0.00 0.00 0.00 3.53
2508 6371 6.070938 TGTTCATCATGTGCCAAATATTCCAA 60.071 34.615 0.00 0.00 0.00 3.53
2509 6372 6.541934 TCATCATGTGCCAAATATTCCAAA 57.458 33.333 0.00 0.00 0.00 3.28
2510 6373 6.944096 TCATCATGTGCCAAATATTCCAAAA 58.056 32.000 0.00 0.00 0.00 2.44
2511 6374 6.817641 TCATCATGTGCCAAATATTCCAAAAC 59.182 34.615 0.00 0.00 0.00 2.43
2512 6375 6.357579 TCATGTGCCAAATATTCCAAAACT 57.642 33.333 0.00 0.00 0.00 2.66
2513 6376 7.473735 TCATGTGCCAAATATTCCAAAACTA 57.526 32.000 0.00 0.00 0.00 2.24
2514 6377 7.901029 TCATGTGCCAAATATTCCAAAACTAA 58.099 30.769 0.00 0.00 0.00 2.24
2515 6378 8.370940 TCATGTGCCAAATATTCCAAAACTAAA 58.629 29.630 0.00 0.00 0.00 1.85
2516 6379 8.997323 CATGTGCCAAATATTCCAAAACTAAAA 58.003 29.630 0.00 0.00 0.00 1.52
2517 6380 9.737844 ATGTGCCAAATATTCCAAAACTAAAAT 57.262 25.926 0.00 0.00 0.00 1.82
2518 6381 9.566432 TGTGCCAAATATTCCAAAACTAAAATT 57.434 25.926 0.00 0.00 0.00 1.82
2519 6382 9.824534 GTGCCAAATATTCCAAAACTAAAATTG 57.175 29.630 0.00 0.00 0.00 2.32
2520 6383 9.007901 TGCCAAATATTCCAAAACTAAAATTGG 57.992 29.630 0.00 0.00 46.03 3.16
2521 6384 9.008965 GCCAAATATTCCAAAACTAAAATTGGT 57.991 29.630 4.62 0.00 45.12 3.67
2525 6388 9.500785 AATATTCCAAAACTAAAATTGGTGGTG 57.499 29.630 4.62 0.00 45.12 4.17
2526 6389 6.546428 TTCCAAAACTAAAATTGGTGGTGA 57.454 33.333 4.62 0.00 45.12 4.02
2527 6390 6.546428 TCCAAAACTAAAATTGGTGGTGAA 57.454 33.333 4.62 0.00 45.12 3.18
2528 6391 6.342111 TCCAAAACTAAAATTGGTGGTGAAC 58.658 36.000 4.62 0.00 45.12 3.18
2541 6404 3.616956 TGGTGAACCAACATTTTTGCA 57.383 38.095 0.00 0.00 44.35 4.08
2542 6405 3.942829 TGGTGAACCAACATTTTTGCAA 58.057 36.364 0.00 0.00 44.35 4.08
2543 6406 4.326826 TGGTGAACCAACATTTTTGCAAA 58.673 34.783 8.05 8.05 44.35 3.68
2544 6407 4.394300 TGGTGAACCAACATTTTTGCAAAG 59.606 37.500 12.41 3.63 44.35 2.77
2545 6408 4.201901 GGTGAACCAACATTTTTGCAAAGG 60.202 41.667 12.41 11.29 35.64 3.11
2546 6409 3.944015 TGAACCAACATTTTTGCAAAGGG 59.056 39.130 12.41 10.41 0.00 3.95
2547 6410 3.643199 ACCAACATTTTTGCAAAGGGT 57.357 38.095 12.41 10.99 0.00 4.34
2548 6411 3.961849 ACCAACATTTTTGCAAAGGGTT 58.038 36.364 12.41 14.15 0.00 4.11
2549 6412 4.339748 ACCAACATTTTTGCAAAGGGTTT 58.660 34.783 12.41 2.48 0.00 3.27
2550 6413 4.157472 ACCAACATTTTTGCAAAGGGTTTG 59.843 37.500 12.41 14.54 43.44 2.93
2551 6414 4.397417 CCAACATTTTTGCAAAGGGTTTGA 59.603 37.500 12.41 0.00 43.26 2.69
2552 6415 5.448904 CCAACATTTTTGCAAAGGGTTTGAG 60.449 40.000 12.41 6.72 43.26 3.02
2553 6416 4.842574 ACATTTTTGCAAAGGGTTTGAGT 58.157 34.783 12.41 1.79 43.26 3.41
2554 6417 4.635324 ACATTTTTGCAAAGGGTTTGAGTG 59.365 37.500 12.41 5.47 43.26 3.51
2555 6418 2.977772 TTTGCAAAGGGTTTGAGTGG 57.022 45.000 8.05 0.00 43.26 4.00
2556 6419 0.463620 TTGCAAAGGGTTTGAGTGGC 59.536 50.000 0.00 0.00 43.26 5.01
2557 6420 1.367471 GCAAAGGGTTTGAGTGGCC 59.633 57.895 0.00 0.00 43.26 5.36
2558 6421 1.115326 GCAAAGGGTTTGAGTGGCCT 61.115 55.000 3.32 0.00 43.26 5.19
2559 6422 1.821666 GCAAAGGGTTTGAGTGGCCTA 60.822 52.381 3.32 0.00 43.26 3.93
2560 6423 2.593026 CAAAGGGTTTGAGTGGCCTAA 58.407 47.619 3.32 0.00 43.26 2.69
2561 6424 2.962421 CAAAGGGTTTGAGTGGCCTAAA 59.038 45.455 3.32 0.00 43.26 1.85
2562 6425 2.287977 AGGGTTTGAGTGGCCTAAAC 57.712 50.000 3.32 10.25 34.45 2.01
2563 6426 1.780919 AGGGTTTGAGTGGCCTAAACT 59.219 47.619 3.32 0.00 35.30 2.66
2564 6427 2.983898 AGGGTTTGAGTGGCCTAAACTA 59.016 45.455 3.32 0.00 35.30 2.24
2565 6428 3.079578 GGGTTTGAGTGGCCTAAACTAC 58.920 50.000 3.32 0.00 35.30 2.73
2566 6429 3.244805 GGGTTTGAGTGGCCTAAACTACT 60.245 47.826 3.32 0.00 35.30 2.57
2567 6430 4.395625 GGTTTGAGTGGCCTAAACTACTT 58.604 43.478 3.32 0.00 35.30 2.24
2568 6431 5.513614 GGGTTTGAGTGGCCTAAACTACTTA 60.514 44.000 3.32 0.00 35.30 2.24
2569 6432 5.999600 GGTTTGAGTGGCCTAAACTACTTAA 59.000 40.000 3.32 0.00 35.30 1.85
2570 6433 6.487668 GGTTTGAGTGGCCTAAACTACTTAAA 59.512 38.462 3.32 4.37 35.30 1.52
2571 6434 7.013559 GGTTTGAGTGGCCTAAACTACTTAAAA 59.986 37.037 3.32 0.75 32.74 1.52
2572 6435 8.573885 GTTTGAGTGGCCTAAACTACTTAAAAT 58.426 33.333 3.32 0.00 32.74 1.82
2573 6436 9.796180 TTTGAGTGGCCTAAACTACTTAAAATA 57.204 29.630 3.32 0.00 29.42 1.40
2574 6437 9.444600 TTGAGTGGCCTAAACTACTTAAAATAG 57.555 33.333 3.32 0.00 0.00 1.73
2575 6438 8.599792 TGAGTGGCCTAAACTACTTAAAATAGT 58.400 33.333 3.32 0.00 34.25 2.12
2576 6439 8.788325 AGTGGCCTAAACTACTTAAAATAGTG 57.212 34.615 3.32 0.00 33.11 2.74
2577 6440 8.599792 AGTGGCCTAAACTACTTAAAATAGTGA 58.400 33.333 3.32 0.00 33.11 3.41
2578 6441 8.663025 GTGGCCTAAACTACTTAAAATAGTGAC 58.337 37.037 3.32 0.00 33.11 3.67
2579 6442 7.825761 TGGCCTAAACTACTTAAAATAGTGACC 59.174 37.037 3.32 0.00 33.11 4.02
2580 6443 8.045507 GGCCTAAACTACTTAAAATAGTGACCT 58.954 37.037 0.00 0.00 33.11 3.85
2599 6462 8.197439 AGTGACCTAAGCAATAAATTAAATGCC 58.803 33.333 9.54 0.00 39.59 4.40
2600 6463 8.197439 GTGACCTAAGCAATAAATTAAATGCCT 58.803 33.333 9.54 1.94 39.59 4.75
2601 6464 8.757877 TGACCTAAGCAATAAATTAAATGCCTT 58.242 29.630 9.54 7.05 39.59 4.35
2602 6465 9.599866 GACCTAAGCAATAAATTAAATGCCTTT 57.400 29.630 9.54 0.00 39.59 3.11
2603 6466 9.958180 ACCTAAGCAATAAATTAAATGCCTTTT 57.042 25.926 9.54 3.00 39.59 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 4.520743 ACGAGATTTCATATGCAACACG 57.479 40.909 0.00 3.75 0.00 4.49
313 387 9.474920 TTTGATGGAAAAGAAATTATGTGTGAC 57.525 29.630 0.00 0.00 0.00 3.67
335 409 2.364970 CAACAAGGCCAATGGAGTTTGA 59.635 45.455 5.01 0.00 0.00 2.69
526 612 5.649970 TCCAAGTCCTAAGTAAAACCCAA 57.350 39.130 0.00 0.00 0.00 4.12
623 714 6.001460 TGGCTTGTGGGCTTGTATATATTAC 58.999 40.000 0.00 0.00 41.48 1.89
727 832 6.128007 ACAAAATTAGCTACATCCTTGGTTCG 60.128 38.462 0.00 0.00 0.00 3.95
971 1080 2.520069 ACACTCTTGATCTCTGGACGT 58.480 47.619 0.00 0.00 0.00 4.34
1147 1259 3.074412 CACATCCAAGGACCACTGTTAC 58.926 50.000 0.00 0.00 0.00 2.50
1749 4209 5.014202 ACTCTTACAAAAACAACACCTGGT 58.986 37.500 0.00 0.00 0.00 4.00
1839 5700 0.802494 CACCGGTGCTAGCGAATTTT 59.198 50.000 24.02 0.00 42.41 1.82
2020 5883 2.830772 AATCGGACAACATGATTGCG 57.169 45.000 0.00 0.00 31.46 4.85
2023 5886 6.016360 TCACAAAGAAATCGGACAACATGATT 60.016 34.615 0.00 0.00 33.94 2.57
2149 6012 4.872664 CCGGTTGTTGGCTTTGTTAATTA 58.127 39.130 0.00 0.00 0.00 1.40
2164 6027 0.402504 TTGTAATCCTGGCCGGTTGT 59.597 50.000 11.58 0.00 0.00 3.32
2232 6095 4.141574 TGTGTTGTTCTACCTAGTGCCTTT 60.142 41.667 0.00 0.00 0.00 3.11
2244 6107 3.181491 GCTGTTGCCTTTGTGTTGTTCTA 60.181 43.478 0.00 0.00 0.00 2.10
2296 6159 0.613853 TTGGCTAGTCGGTGTAGGCT 60.614 55.000 12.18 0.00 42.24 4.58
2323 6186 1.502690 TAGCATCATTACACCGGGGT 58.497 50.000 16.91 16.91 0.00 4.95
2324 6187 2.631160 TTAGCATCATTACACCGGGG 57.369 50.000 0.00 0.00 0.00 5.73
2325 6188 3.541632 ACTTTAGCATCATTACACCGGG 58.458 45.455 6.32 0.00 0.00 5.73
2326 6189 6.073222 GGATTACTTTAGCATCATTACACCGG 60.073 42.308 0.00 0.00 0.00 5.28
2327 6190 6.073222 GGGATTACTTTAGCATCATTACACCG 60.073 42.308 0.00 0.00 0.00 4.94
2328 6191 6.998673 AGGGATTACTTTAGCATCATTACACC 59.001 38.462 0.00 0.00 0.00 4.16
2329 6192 7.715249 TCAGGGATTACTTTAGCATCATTACAC 59.285 37.037 0.00 0.00 0.00 2.90
2330 6193 7.801104 TCAGGGATTACTTTAGCATCATTACA 58.199 34.615 0.00 0.00 0.00 2.41
2331 6194 8.150945 TCTCAGGGATTACTTTAGCATCATTAC 58.849 37.037 0.00 0.00 0.00 1.89
2332 6195 8.262601 TCTCAGGGATTACTTTAGCATCATTA 57.737 34.615 0.00 0.00 0.00 1.90
2333 6196 7.141758 TCTCAGGGATTACTTTAGCATCATT 57.858 36.000 0.00 0.00 0.00 2.57
2334 6197 6.753913 TCTCAGGGATTACTTTAGCATCAT 57.246 37.500 0.00 0.00 0.00 2.45
2335 6198 6.327365 TGATCTCAGGGATTACTTTAGCATCA 59.673 38.462 0.00 0.00 34.33 3.07
2336 6199 6.763355 TGATCTCAGGGATTACTTTAGCATC 58.237 40.000 0.00 0.00 34.33 3.91
2337 6200 6.753913 TGATCTCAGGGATTACTTTAGCAT 57.246 37.500 0.00 0.00 34.33 3.79
2338 6201 6.560003 TTGATCTCAGGGATTACTTTAGCA 57.440 37.500 0.00 0.00 34.33 3.49
2339 6202 5.468409 GCTTGATCTCAGGGATTACTTTAGC 59.532 44.000 0.00 0.00 34.33 3.09
2340 6203 6.825610 AGCTTGATCTCAGGGATTACTTTAG 58.174 40.000 0.00 0.00 34.33 1.85
2341 6204 6.814954 AGCTTGATCTCAGGGATTACTTTA 57.185 37.500 0.00 0.00 34.33 1.85
2342 6205 5.707066 AGCTTGATCTCAGGGATTACTTT 57.293 39.130 0.00 0.00 34.33 2.66
2343 6206 6.814954 TTAGCTTGATCTCAGGGATTACTT 57.185 37.500 0.00 0.00 34.33 2.24
2344 6207 6.556495 TGATTAGCTTGATCTCAGGGATTACT 59.444 38.462 0.00 0.00 34.33 2.24
2345 6208 6.763355 TGATTAGCTTGATCTCAGGGATTAC 58.237 40.000 0.00 0.00 34.33 1.89
2346 6209 7.565190 ATGATTAGCTTGATCTCAGGGATTA 57.435 36.000 0.00 0.00 34.33 1.75
2347 6210 5.901413 TGATTAGCTTGATCTCAGGGATT 57.099 39.130 0.00 0.00 34.33 3.01
2348 6211 6.451292 AATGATTAGCTTGATCTCAGGGAT 57.549 37.500 0.00 0.00 37.37 3.85
2349 6212 5.901413 AATGATTAGCTTGATCTCAGGGA 57.099 39.130 0.00 0.00 0.00 4.20
2350 6213 6.735145 GCAAAATGATTAGCTTGATCTCAGGG 60.735 42.308 0.00 0.00 0.00 4.45
2351 6214 6.039493 AGCAAAATGATTAGCTTGATCTCAGG 59.961 38.462 0.00 0.00 32.52 3.86
2352 6215 7.028926 AGCAAAATGATTAGCTTGATCTCAG 57.971 36.000 0.00 0.00 32.52 3.35
2353 6216 8.687292 ATAGCAAAATGATTAGCTTGATCTCA 57.313 30.769 9.77 0.00 38.47 3.27
2358 6221 9.177608 ACTGTTATAGCAAAATGATTAGCTTGA 57.822 29.630 9.77 0.00 38.47 3.02
2359 6222 9.229784 CACTGTTATAGCAAAATGATTAGCTTG 57.770 33.333 9.77 0.00 38.47 4.01
2360 6223 7.917505 GCACTGTTATAGCAAAATGATTAGCTT 59.082 33.333 9.77 2.84 38.47 3.74
2361 6224 7.284034 AGCACTGTTATAGCAAAATGATTAGCT 59.716 33.333 9.49 9.49 40.92 3.32
2362 6225 7.420800 AGCACTGTTATAGCAAAATGATTAGC 58.579 34.615 0.00 0.00 0.00 3.09
2365 6228 8.960591 ACTAAGCACTGTTATAGCAAAATGATT 58.039 29.630 4.76 4.76 0.00 2.57
2366 6229 8.511604 ACTAAGCACTGTTATAGCAAAATGAT 57.488 30.769 0.00 0.00 0.00 2.45
2367 6230 7.606073 TGACTAAGCACTGTTATAGCAAAATGA 59.394 33.333 0.00 0.00 0.00 2.57
2368 6231 7.693951 GTGACTAAGCACTGTTATAGCAAAATG 59.306 37.037 0.00 0.00 35.91 2.32
2369 6232 7.607991 AGTGACTAAGCACTGTTATAGCAAAAT 59.392 33.333 0.00 0.00 46.72 1.82
2370 6233 6.934645 AGTGACTAAGCACTGTTATAGCAAAA 59.065 34.615 0.00 0.00 46.72 2.44
2371 6234 6.464222 AGTGACTAAGCACTGTTATAGCAAA 58.536 36.000 0.00 0.00 46.72 3.68
2372 6235 6.037786 AGTGACTAAGCACTGTTATAGCAA 57.962 37.500 0.00 0.00 46.72 3.91
2373 6236 5.661056 AGTGACTAAGCACTGTTATAGCA 57.339 39.130 0.00 0.00 46.72 3.49
2383 6246 9.937175 GGAATATTGATTAAAGTGACTAAGCAC 57.063 33.333 0.00 0.00 39.05 4.40
2384 6247 9.679661 TGGAATATTGATTAAAGTGACTAAGCA 57.320 29.630 0.00 0.00 0.00 3.91
2400 6263 9.656040 CAACTGGAATTTGAAATGGAATATTGA 57.344 29.630 0.00 0.00 0.00 2.57
2401 6264 9.656040 TCAACTGGAATTTGAAATGGAATATTG 57.344 29.630 0.00 0.00 29.89 1.90
2418 6281 9.835389 AGAAAATGAAATTGAATTCAACTGGAA 57.165 25.926 22.71 8.64 42.22 3.53
2419 6282 9.263538 CAGAAAATGAAATTGAATTCAACTGGA 57.736 29.630 22.71 8.40 42.22 3.86
2420 6283 9.263538 TCAGAAAATGAAATTGAATTCAACTGG 57.736 29.630 22.71 7.56 42.22 4.00
2445 6308 6.531240 TGTTTGAGCAATTTTGAGTTTCACTC 59.469 34.615 0.00 0.00 45.26 3.51
2446 6309 6.397272 TGTTTGAGCAATTTTGAGTTTCACT 58.603 32.000 0.00 0.00 0.00 3.41
2447 6310 6.645700 TGTTTGAGCAATTTTGAGTTTCAC 57.354 33.333 0.00 0.00 0.00 3.18
2448 6311 7.040494 TCATGTTTGAGCAATTTTGAGTTTCA 58.960 30.769 0.00 0.00 0.00 2.69
2449 6312 7.467557 TCATGTTTGAGCAATTTTGAGTTTC 57.532 32.000 0.00 0.00 0.00 2.78
2450 6313 7.846644 TTCATGTTTGAGCAATTTTGAGTTT 57.153 28.000 0.00 0.00 32.27 2.66
2451 6314 7.846644 TTTCATGTTTGAGCAATTTTGAGTT 57.153 28.000 0.00 0.00 32.27 3.01
2452 6315 7.550196 AGTTTTCATGTTTGAGCAATTTTGAGT 59.450 29.630 0.00 0.00 32.27 3.41
2453 6316 7.912383 AGTTTTCATGTTTGAGCAATTTTGAG 58.088 30.769 0.00 0.00 32.27 3.02
2454 6317 7.846644 AGTTTTCATGTTTGAGCAATTTTGA 57.153 28.000 0.00 0.00 32.27 2.69
2455 6318 9.985318 TTTAGTTTTCATGTTTGAGCAATTTTG 57.015 25.926 0.00 0.00 32.27 2.44
2459 6322 9.328845 ACATTTTAGTTTTCATGTTTGAGCAAT 57.671 25.926 0.00 0.00 32.27 3.56
2460 6323 8.715191 ACATTTTAGTTTTCATGTTTGAGCAA 57.285 26.923 0.00 0.00 32.27 3.91
2461 6324 8.715191 AACATTTTAGTTTTCATGTTTGAGCA 57.285 26.923 0.00 0.00 36.64 4.26
2462 6325 8.816144 TGAACATTTTAGTTTTCATGTTTGAGC 58.184 29.630 0.00 0.00 39.43 4.26
2468 6331 9.985730 ACATGATGAACATTTTAGTTTTCATGT 57.014 25.926 20.96 20.96 46.57 3.21
2470 6333 8.928733 GCACATGATGAACATTTTAGTTTTCAT 58.071 29.630 0.00 0.00 40.57 2.57
2471 6334 7.384660 GGCACATGATGAACATTTTAGTTTTCA 59.615 33.333 0.00 0.00 37.07 2.69
2472 6335 7.384660 TGGCACATGATGAACATTTTAGTTTTC 59.615 33.333 0.00 0.00 37.07 2.29
2473 6336 7.215789 TGGCACATGATGAACATTTTAGTTTT 58.784 30.769 0.00 0.00 37.07 2.43
2474 6337 6.757237 TGGCACATGATGAACATTTTAGTTT 58.243 32.000 0.00 0.00 37.07 2.66
2475 6338 6.343716 TGGCACATGATGAACATTTTAGTT 57.656 33.333 0.00 0.00 37.07 2.24
2476 6339 5.981088 TGGCACATGATGAACATTTTAGT 57.019 34.783 0.00 0.00 37.07 2.24
2477 6340 7.837202 ATTTGGCACATGATGAACATTTTAG 57.163 32.000 0.00 0.00 39.30 1.85
2478 6341 9.887629 AATATTTGGCACATGATGAACATTTTA 57.112 25.926 0.00 0.00 39.30 1.52
2479 6342 8.795842 AATATTTGGCACATGATGAACATTTT 57.204 26.923 0.00 0.00 39.30 1.82
2480 6343 7.496591 GGAATATTTGGCACATGATGAACATTT 59.503 33.333 0.00 0.00 39.30 2.32
2481 6344 6.987992 GGAATATTTGGCACATGATGAACATT 59.012 34.615 0.00 0.00 39.30 2.71
2482 6345 6.098552 TGGAATATTTGGCACATGATGAACAT 59.901 34.615 0.00 0.00 39.30 2.71
2483 6346 5.421374 TGGAATATTTGGCACATGATGAACA 59.579 36.000 0.00 0.00 39.30 3.18
2484 6347 5.904941 TGGAATATTTGGCACATGATGAAC 58.095 37.500 0.00 0.00 39.30 3.18
2485 6348 6.541934 TTGGAATATTTGGCACATGATGAA 57.458 33.333 0.00 0.00 39.30 2.57
2486 6349 6.541934 TTTGGAATATTTGGCACATGATGA 57.458 33.333 0.00 0.00 39.30 2.92
2487 6350 6.819649 AGTTTTGGAATATTTGGCACATGATG 59.180 34.615 0.00 0.00 39.30 3.07
2488 6351 6.949715 AGTTTTGGAATATTTGGCACATGAT 58.050 32.000 0.00 0.00 39.30 2.45
2489 6352 6.357579 AGTTTTGGAATATTTGGCACATGA 57.642 33.333 0.00 0.00 39.30 3.07
2490 6353 8.545229 TTTAGTTTTGGAATATTTGGCACATG 57.455 30.769 0.00 0.00 39.30 3.21
2491 6354 9.737844 ATTTTAGTTTTGGAATATTTGGCACAT 57.262 25.926 0.00 0.00 39.30 3.21
2492 6355 9.566432 AATTTTAGTTTTGGAATATTTGGCACA 57.434 25.926 0.00 0.00 0.00 4.57
2493 6356 9.824534 CAATTTTAGTTTTGGAATATTTGGCAC 57.175 29.630 0.00 0.00 0.00 5.01
2494 6357 9.007901 CCAATTTTAGTTTTGGAATATTTGGCA 57.992 29.630 0.00 0.00 44.23 4.92
2495 6358 9.008965 ACCAATTTTAGTTTTGGAATATTTGGC 57.991 29.630 8.58 0.00 44.23 4.52
2499 6362 9.500785 CACCACCAATTTTAGTTTTGGAATATT 57.499 29.630 8.58 0.00 44.23 1.28
2500 6363 8.875168 TCACCACCAATTTTAGTTTTGGAATAT 58.125 29.630 8.58 0.00 44.23 1.28
2501 6364 8.251383 TCACCACCAATTTTAGTTTTGGAATA 57.749 30.769 8.58 0.00 44.23 1.75
2502 6365 7.130681 TCACCACCAATTTTAGTTTTGGAAT 57.869 32.000 8.58 0.00 44.23 3.01
2503 6366 6.546428 TCACCACCAATTTTAGTTTTGGAA 57.454 33.333 8.58 0.00 44.23 3.53
2504 6367 6.342111 GTTCACCACCAATTTTAGTTTTGGA 58.658 36.000 8.58 0.00 44.23 3.53
2505 6368 5.525745 GGTTCACCACCAATTTTAGTTTTGG 59.474 40.000 0.29 0.29 46.42 3.28
2506 6369 6.597262 GGTTCACCACCAATTTTAGTTTTG 57.403 37.500 0.00 0.00 46.42 2.44
2521 6384 3.616956 TGCAAAAATGTTGGTTCACCA 57.383 38.095 0.00 0.00 45.94 4.17
2522 6385 4.201901 CCTTTGCAAAAATGTTGGTTCACC 60.202 41.667 13.84 0.00 0.00 4.02
2523 6386 4.201901 CCCTTTGCAAAAATGTTGGTTCAC 60.202 41.667 13.84 0.00 0.00 3.18
2524 6387 3.944015 CCCTTTGCAAAAATGTTGGTTCA 59.056 39.130 13.84 0.00 0.00 3.18
2525 6388 3.944650 ACCCTTTGCAAAAATGTTGGTTC 59.055 39.130 13.84 0.00 0.00 3.62
2526 6389 3.961849 ACCCTTTGCAAAAATGTTGGTT 58.038 36.364 13.84 0.00 0.00 3.67
2527 6390 3.643199 ACCCTTTGCAAAAATGTTGGT 57.357 38.095 13.84 9.74 0.00 3.67
2528 6391 4.397417 TCAAACCCTTTGCAAAAATGTTGG 59.603 37.500 13.84 13.21 40.43 3.77
2529 6392 5.123661 ACTCAAACCCTTTGCAAAAATGTTG 59.876 36.000 13.84 14.28 40.43 3.33
2530 6393 5.123661 CACTCAAACCCTTTGCAAAAATGTT 59.876 36.000 13.84 12.95 40.43 2.71
2531 6394 4.635324 CACTCAAACCCTTTGCAAAAATGT 59.365 37.500 13.84 7.62 40.43 2.71
2532 6395 4.035441 CCACTCAAACCCTTTGCAAAAATG 59.965 41.667 13.84 6.99 40.43 2.32
2533 6396 4.198530 CCACTCAAACCCTTTGCAAAAAT 58.801 39.130 13.84 0.00 40.43 1.82
2534 6397 3.604582 CCACTCAAACCCTTTGCAAAAA 58.395 40.909 13.84 0.00 40.43 1.94
2535 6398 2.679349 GCCACTCAAACCCTTTGCAAAA 60.679 45.455 13.84 0.00 40.43 2.44
2536 6399 1.134551 GCCACTCAAACCCTTTGCAAA 60.135 47.619 12.14 12.14 40.43 3.68
2537 6400 0.463620 GCCACTCAAACCCTTTGCAA 59.536 50.000 0.00 0.00 40.43 4.08
2538 6401 1.398958 GGCCACTCAAACCCTTTGCA 61.399 55.000 0.00 0.00 40.43 4.08
2539 6402 1.115326 AGGCCACTCAAACCCTTTGC 61.115 55.000 5.01 0.00 40.43 3.68
2540 6403 2.286365 TAGGCCACTCAAACCCTTTG 57.714 50.000 5.01 0.00 41.96 2.77
2541 6404 2.963101 GTTTAGGCCACTCAAACCCTTT 59.037 45.455 5.01 0.00 0.00 3.11
2542 6405 2.177016 AGTTTAGGCCACTCAAACCCTT 59.823 45.455 5.01 0.00 33.58 3.95
2543 6406 1.780919 AGTTTAGGCCACTCAAACCCT 59.219 47.619 5.01 0.00 33.58 4.34
2544 6407 2.287977 AGTTTAGGCCACTCAAACCC 57.712 50.000 5.01 0.00 33.58 4.11
2545 6408 4.017177 AGTAGTTTAGGCCACTCAAACC 57.983 45.455 5.01 0.00 33.58 3.27
2546 6409 7.500720 TTTAAGTAGTTTAGGCCACTCAAAC 57.499 36.000 5.01 9.71 33.35 2.93
2547 6410 8.700439 ATTTTAAGTAGTTTAGGCCACTCAAA 57.300 30.769 5.01 2.25 0.00 2.69
2548 6411 9.444600 CTATTTTAAGTAGTTTAGGCCACTCAA 57.555 33.333 5.01 0.00 0.00 3.02
2549 6412 8.599792 ACTATTTTAAGTAGTTTAGGCCACTCA 58.400 33.333 5.01 0.00 0.00 3.41
2550 6413 8.880750 CACTATTTTAAGTAGTTTAGGCCACTC 58.119 37.037 5.01 0.00 30.24 3.51
2551 6414 8.599792 TCACTATTTTAAGTAGTTTAGGCCACT 58.400 33.333 5.01 1.65 30.24 4.00
2552 6415 8.663025 GTCACTATTTTAAGTAGTTTAGGCCAC 58.337 37.037 5.01 0.00 30.24 5.01
2553 6416 7.825761 GGTCACTATTTTAAGTAGTTTAGGCCA 59.174 37.037 5.01 0.00 30.24 5.36
2554 6417 8.045507 AGGTCACTATTTTAAGTAGTTTAGGCC 58.954 37.037 0.00 0.00 30.24 5.19
2573 6436 8.197439 GGCATTTAATTTATTGCTTAGGTCACT 58.803 33.333 10.18 0.00 35.46 3.41
2574 6437 8.197439 AGGCATTTAATTTATTGCTTAGGTCAC 58.803 33.333 10.18 0.00 35.46 3.67
2575 6438 8.305046 AGGCATTTAATTTATTGCTTAGGTCA 57.695 30.769 10.18 0.00 35.46 4.02
2576 6439 9.599866 AAAGGCATTTAATTTATTGCTTAGGTC 57.400 29.630 10.18 0.00 35.46 3.85
2577 6440 9.958180 AAAAGGCATTTAATTTATTGCTTAGGT 57.042 25.926 0.00 0.00 35.46 3.08


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

AutoCloner maintained by Alex Coulton.