Multiple sequence alignment - TraesCS2B01G115600

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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 TraesCS2B01G115600 chr2B 100.000 2594 0 0 1 2594 78836251 78838844 0.000000e+00 4791.0
1 TraesCS2B01G115600 chr2B 99.405 168 1 0 2427 2594 78846816 78846983 3.240000e-79 305.0
2 TraesCS2B01G115600 chr2B 90.441 136 12 1 2291 2425 78857975 78857840 7.380000e-41 178.0
3 TraesCS2B01G115600 chr2B 95.455 44 1 1 1825 1867 90032967 90033010 4.630000e-08 69.4
4 TraesCS2B01G115600 chr2B 97.368 38 1 0 1646 1683 78837825 78837862 5.990000e-07 65.8
5 TraesCS2B01G115600 chr2B 97.368 38 1 0 1575 1612 78837896 78837933 5.990000e-07 65.8
6 TraesCS2B01G115600 chr2D 96.214 1215 26 2 821 2015 50669562 50670776 0.000000e+00 1971.0
7 TraesCS2B01G115600 chr2D 96.719 823 20 7 1 820 50668664 50669482 0.000000e+00 1363.0
8 TraesCS2B01G115600 chr2D 92.995 414 16 3 2024 2425 50670830 50671242 2.220000e-165 592.0
9 TraesCS2B01G115600 chr2D 92.754 138 9 1 2291 2427 50673209 50673072 5.660000e-47 198.0
10 TraesCS2B01G115600 chr2D 97.368 38 1 0 1646 1683 50670316 50670353 5.990000e-07 65.8
11 TraesCS2B01G115600 chr7D 92.679 1120 54 13 821 1917 106478445 106477331 0.000000e+00 1589.0
12 TraesCS2B01G115600 chr7D 95.486 997 32 6 821 1810 106363587 106364577 0.000000e+00 1580.0
13 TraesCS2B01G115600 chr7D 91.257 835 40 18 6 820 106479309 106478488 0.000000e+00 1107.0
14 TraesCS2B01G115600 chr7D 85.660 523 30 16 140 644 106360476 106360971 2.300000e-140 508.0
15 TraesCS2B01G115600 chr7D 90.640 203 16 1 2025 2227 106477133 106476934 1.530000e-67 267.0
16 TraesCS2B01G115600 chr7D 92.453 159 9 1 2069 2227 106366116 106366271 9.340000e-55 224.0
17 TraesCS2B01G115600 chr7D 92.248 129 8 1 692 820 106363382 106363508 5.700000e-42 182.0
18 TraesCS2B01G115600 chr7D 93.333 120 5 2 1801 1917 106364988 106365107 9.540000e-40 174.0
19 TraesCS2B01G115600 chr7D 83.333 186 7 15 6 179 106360301 106360474 1.610000e-32 150.0
20 TraesCS2B01G115600 chr7D 93.333 90 6 0 1926 2015 106477277 106477188 1.620000e-27 134.0
21 TraesCS2B01G115600 chr7D 91.398 93 5 2 1926 2015 106365163 106365255 9.750000e-25 124.0
22 TraesCS2B01G115600 chr7B 90.175 458 33 8 180 628 64945130 64945584 1.030000e-163 586.0
23 TraesCS2B01G115600 chr7B 98.810 168 1 1 2427 2594 162601156 162601322 5.430000e-77 298.0
24 TraesCS2B01G115600 chr7B 98.795 166 0 2 2423 2588 248327535 248327698 7.020000e-76 294.0
25 TraesCS2B01G115600 chr7B 92.857 84 6 0 2025 2108 64945835 64945918 3.510000e-24 122.0
26 TraesCS2B01G115600 chr7B 88.889 90 10 0 1926 2015 64945691 64945780 7.590000e-21 111.0
27 TraesCS2B01G115600 chr4B 98.810 168 1 1 2427 2594 78730530 78730364 5.430000e-77 298.0
28 TraesCS2B01G115600 chr4B 98.246 171 1 2 2424 2594 469831091 469831259 5.430000e-77 298.0
29 TraesCS2B01G115600 chr4B 97.500 40 0 1 2364 2403 331576072 331576110 1.670000e-07 67.6
30 TraesCS2B01G115600 chr1A 97.159 176 3 2 2420 2594 486382449 486382275 1.950000e-76 296.0
31 TraesCS2B01G115600 chr4A 96.648 179 3 2 2418 2594 499076020 499075843 7.020000e-76 294.0
32 TraesCS2B01G115600 chr1B 96.552 174 6 0 2415 2588 648555500 648555673 3.270000e-74 289.0
33 TraesCS2B01G115600 chr3B 95.055 182 7 2 2414 2594 253518836 253518656 4.220000e-73 285.0
34 TraesCS2B01G115600 chr3B 79.845 129 19 6 2283 2407 255992420 255992545 1.280000e-13 87.9
35 TraesCS2B01G115600 chr3D 84.314 153 22 2 2276 2426 132850637 132850485 5.780000e-32 148.0
36 TraesCS2B01G115600 chr3D 81.250 128 18 6 2283 2406 199090906 199090781 5.910000e-17 99.0
37 TraesCS2B01G115600 chr1D 96.226 53 2 0 2352 2404 115103980 115103928 1.280000e-13 87.9


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 TraesCS2B01G115600 chr2B 78836251 78838844 2593 False 1640.866667 4791 98.245333 1 2594 3 chr2B.!!$F3 2593
1 TraesCS2B01G115600 chr2D 50668664 50671242 2578 False 997.950000 1971 95.824000 1 2425 4 chr2D.!!$F1 2424
2 TraesCS2B01G115600 chr7D 106476934 106479309 2375 True 774.250000 1589 91.977250 6 2227 4 chr7D.!!$R1 2221
3 TraesCS2B01G115600 chr7D 106360301 106366271 5970 False 420.285714 1580 90.558714 6 2227 7 chr7D.!!$F1 2221
4 TraesCS2B01G115600 chr7B 64945130 64945918 788 False 273.000000 586 90.640333 180 2108 3 chr7B.!!$F3 1928

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
879 3419 0.886563 ACAAAGGCAGCTGCTGAATC 59.113 50.0 35.82 20.17 41.7 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2280 6136 0.042131 CTGGTACCCCTAGTCCCACA 59.958 60.0 10.07 0.0 29.99 4.17 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
36 38 1.064906 AGGTGCATTCTGCTGCTATGT 60.065 47.619 0.00 0.00 45.31 2.29
328 409 4.585162 CCCTCATAAGACACCCTGTAGTAG 59.415 50.000 0.00 0.00 0.00 2.57
383 464 7.211573 TCAACATTGATTTTCATGAAGCAGTT 58.788 30.769 8.41 7.33 31.01 3.16
439 521 2.776526 TCACCCTGCCCAACACCT 60.777 61.111 0.00 0.00 0.00 4.00
544 637 3.914426 TCTAGAGTTCCTTGCATTCCC 57.086 47.619 0.00 0.00 0.00 3.97
658 751 7.801716 TGCATTATAGGGAGTTTAACATCAC 57.198 36.000 0.00 0.00 0.00 3.06
662 755 9.265901 CATTATAGGGAGTTTAACATCACTCAG 57.734 37.037 7.21 0.00 41.19 3.35
667 760 5.338381 GGGAGTTTAACATCACTCAGATCCA 60.338 44.000 7.21 0.00 41.19 3.41
722 3179 2.492088 TGGAACACAGTCTCATACTCCG 59.508 50.000 0.00 0.00 35.76 4.63
725 3182 4.498345 GGAACACAGTCTCATACTCCGATC 60.498 50.000 0.00 0.00 35.76 3.69
825 3365 5.840243 ACATAACAGTATGCTACGTACCA 57.160 39.130 0.00 0.00 42.53 3.25
879 3419 0.886563 ACAAAGGCAGCTGCTGAATC 59.113 50.000 35.82 20.17 41.70 2.52
1074 3617 1.298859 GCATCTCCCGTGCGAGTTTT 61.299 55.000 0.00 0.00 32.29 2.43
1641 4205 2.688446 TCCTGTAGTATCAAGACGCTGG 59.312 50.000 0.00 0.00 0.00 4.85
1656 4220 1.737793 CGCTGGTGTTTATCCTTGACC 59.262 52.381 0.00 0.00 0.00 4.02
1946 4980 3.340928 GTGGAAAACCCTAGCATTACGT 58.659 45.455 0.00 0.00 35.38 3.57
2015 5052 6.962182 TCTAATCCACCAATCTTCAAGACAT 58.038 36.000 0.00 0.00 0.00 3.06
2016 5053 8.089625 TCTAATCCACCAATCTTCAAGACATA 57.910 34.615 0.00 0.00 0.00 2.29
2017 5054 8.206867 TCTAATCCACCAATCTTCAAGACATAG 58.793 37.037 0.00 0.00 0.00 2.23
2018 5055 5.102953 TCCACCAATCTTCAAGACATAGG 57.897 43.478 0.00 0.00 0.00 2.57
2019 5056 4.782691 TCCACCAATCTTCAAGACATAGGA 59.217 41.667 0.00 0.00 0.00 2.94
2020 5057 5.429762 TCCACCAATCTTCAAGACATAGGAT 59.570 40.000 0.00 0.00 0.00 3.24
2021 5058 5.530171 CCACCAATCTTCAAGACATAGGATG 59.470 44.000 0.00 0.00 0.00 3.51
2130 5974 3.495453 GCGGTCAGAGGTCTAGAGTCTAT 60.495 52.174 0.00 0.00 0.00 1.98
2141 5985 5.068460 GGTCTAGAGTCTATGACATTGCAGT 59.932 44.000 21.27 0.00 34.60 4.40
2157 6001 1.859998 GCAGTGTCAACCAAGCGAAAC 60.860 52.381 0.00 0.00 0.00 2.78
2267 6123 3.590574 GGGCCCCAGTCCCAAAGT 61.591 66.667 12.23 0.00 43.37 2.66
2274 6130 1.133792 CCCAGTCCCAAAGTCACTGTT 60.134 52.381 0.00 0.00 36.57 3.16
2280 6136 0.468029 CCAAAGTCACTGTTGGGCCT 60.468 55.000 4.53 0.00 40.59 5.19
2425 6282 4.035102 AAGTCGCCAAGGCCCTCC 62.035 66.667 5.34 0.00 37.98 4.30
2435 6292 1.615262 AGGCCCTCCTTGTAATGCC 59.385 57.895 0.00 0.00 40.66 4.40
2436 6293 1.455773 GGCCCTCCTTGTAATGCCC 60.456 63.158 0.00 0.00 32.74 5.36
2437 6294 1.455773 GCCCTCCTTGTAATGCCCC 60.456 63.158 0.00 0.00 0.00 5.80
2438 6295 1.152963 CCCTCCTTGTAATGCCCCG 60.153 63.158 0.00 0.00 0.00 5.73
2439 6296 1.632018 CCCTCCTTGTAATGCCCCGA 61.632 60.000 0.00 0.00 0.00 5.14
2440 6297 0.179045 CCTCCTTGTAATGCCCCGAG 60.179 60.000 0.00 0.00 0.00 4.63
2441 6298 0.830648 CTCCTTGTAATGCCCCGAGA 59.169 55.000 0.00 0.00 0.00 4.04
2442 6299 0.539986 TCCTTGTAATGCCCCGAGAC 59.460 55.000 0.00 0.00 0.00 3.36
2443 6300 0.463833 CCTTGTAATGCCCCGAGACC 60.464 60.000 0.00 0.00 0.00 3.85
2444 6301 0.810031 CTTGTAATGCCCCGAGACCG 60.810 60.000 0.00 0.00 0.00 4.79
2445 6302 1.259142 TTGTAATGCCCCGAGACCGA 61.259 55.000 0.00 0.00 38.22 4.69
2446 6303 1.227176 GTAATGCCCCGAGACCGAC 60.227 63.158 0.00 0.00 38.22 4.79
2447 6304 2.777972 TAATGCCCCGAGACCGACG 61.778 63.158 0.00 0.00 38.22 5.12
2453 6310 4.180946 CCGAGACCGACGCTCCAG 62.181 72.222 0.00 0.00 38.22 3.86
2454 6311 3.125573 CGAGACCGACGCTCCAGA 61.126 66.667 0.00 0.00 38.22 3.86
2455 6312 2.687805 CGAGACCGACGCTCCAGAA 61.688 63.158 0.00 0.00 38.22 3.02
2456 6313 1.137825 GAGACCGACGCTCCAGAAG 59.862 63.158 0.00 0.00 0.00 2.85
2457 6314 1.303398 AGACCGACGCTCCAGAAGA 60.303 57.895 0.00 0.00 0.00 2.87
2458 6315 1.153997 GACCGACGCTCCAGAAGAC 60.154 63.158 0.00 0.00 0.00 3.01
2459 6316 1.587933 GACCGACGCTCCAGAAGACT 61.588 60.000 0.00 0.00 0.00 3.24
2460 6317 1.179814 ACCGACGCTCCAGAAGACTT 61.180 55.000 0.00 0.00 0.00 3.01
2461 6318 0.456995 CCGACGCTCCAGAAGACTTC 60.457 60.000 7.14 7.14 0.00 3.01
2462 6319 0.456995 CGACGCTCCAGAAGACTTCC 60.457 60.000 11.67 0.00 0.00 3.46
2463 6320 0.603569 GACGCTCCAGAAGACTTCCA 59.396 55.000 11.67 0.00 0.00 3.53
2464 6321 0.605589 ACGCTCCAGAAGACTTCCAG 59.394 55.000 11.67 6.79 0.00 3.86
2465 6322 0.739112 CGCTCCAGAAGACTTCCAGC 60.739 60.000 11.67 14.50 0.00 4.85
2466 6323 0.612744 GCTCCAGAAGACTTCCAGCT 59.387 55.000 18.00 0.00 0.00 4.24
2467 6324 1.827969 GCTCCAGAAGACTTCCAGCTA 59.172 52.381 18.00 0.68 0.00 3.32
2468 6325 2.433970 GCTCCAGAAGACTTCCAGCTAT 59.566 50.000 18.00 0.00 0.00 2.97
2469 6326 3.118445 GCTCCAGAAGACTTCCAGCTATT 60.118 47.826 18.00 0.00 0.00 1.73
2470 6327 4.692228 CTCCAGAAGACTTCCAGCTATTC 58.308 47.826 11.67 0.00 0.00 1.75
2471 6328 3.452627 TCCAGAAGACTTCCAGCTATTCC 59.547 47.826 11.67 0.00 0.00 3.01
2472 6329 3.452474 CAGAAGACTTCCAGCTATTCCG 58.548 50.000 11.67 0.00 0.00 4.30
2473 6330 3.131223 CAGAAGACTTCCAGCTATTCCGA 59.869 47.826 11.67 0.00 0.00 4.55
2474 6331 3.383185 AGAAGACTTCCAGCTATTCCGAG 59.617 47.826 11.67 0.00 0.00 4.63
2475 6332 2.741145 AGACTTCCAGCTATTCCGAGT 58.259 47.619 0.00 0.00 0.00 4.18
2476 6333 3.100671 AGACTTCCAGCTATTCCGAGTT 58.899 45.455 0.00 0.00 0.00 3.01
2477 6334 3.515901 AGACTTCCAGCTATTCCGAGTTT 59.484 43.478 0.00 0.00 0.00 2.66
2478 6335 3.863041 ACTTCCAGCTATTCCGAGTTTC 58.137 45.455 0.00 0.00 0.00 2.78
2479 6336 2.579207 TCCAGCTATTCCGAGTTTCG 57.421 50.000 0.00 0.00 40.07 3.46
2480 6337 1.822990 TCCAGCTATTCCGAGTTTCGT 59.177 47.619 0.00 0.00 38.40 3.85
2481 6338 2.159282 TCCAGCTATTCCGAGTTTCGTC 60.159 50.000 0.00 0.00 38.40 4.20
2482 6339 1.846782 CAGCTATTCCGAGTTTCGTCG 59.153 52.381 0.00 0.00 38.40 5.12
2483 6340 1.471684 AGCTATTCCGAGTTTCGTCGT 59.528 47.619 0.00 0.00 38.40 4.34
2484 6341 1.582502 GCTATTCCGAGTTTCGTCGTG 59.417 52.381 0.00 0.00 38.40 4.35
2485 6342 2.860062 CTATTCCGAGTTTCGTCGTGT 58.140 47.619 0.00 0.00 38.40 4.49
2486 6343 1.415374 ATTCCGAGTTTCGTCGTGTG 58.585 50.000 0.00 0.00 38.40 3.82
2487 6344 0.381445 TTCCGAGTTTCGTCGTGTGA 59.619 50.000 0.00 0.00 38.40 3.58
2488 6345 0.594602 TCCGAGTTTCGTCGTGTGAT 59.405 50.000 0.00 0.00 38.40 3.06
2489 6346 1.001048 TCCGAGTTTCGTCGTGTGATT 60.001 47.619 0.00 0.00 38.40 2.57
2490 6347 1.790623 CCGAGTTTCGTCGTGTGATTT 59.209 47.619 0.00 0.00 38.40 2.17
2491 6348 2.409752 CCGAGTTTCGTCGTGTGATTTG 60.410 50.000 0.00 0.00 38.40 2.32
2492 6349 2.217847 CGAGTTTCGTCGTGTGATTTGT 59.782 45.455 0.00 0.00 34.72 2.83
2493 6350 3.302221 CGAGTTTCGTCGTGTGATTTGTT 60.302 43.478 0.00 0.00 34.72 2.83
2494 6351 4.584394 GAGTTTCGTCGTGTGATTTGTTT 58.416 39.130 0.00 0.00 0.00 2.83
2495 6352 4.976987 AGTTTCGTCGTGTGATTTGTTTT 58.023 34.783 0.00 0.00 0.00 2.43
2496 6353 6.109320 AGTTTCGTCGTGTGATTTGTTTTA 57.891 33.333 0.00 0.00 0.00 1.52
2497 6354 6.721321 AGTTTCGTCGTGTGATTTGTTTTAT 58.279 32.000 0.00 0.00 0.00 1.40
2498 6355 7.190871 AGTTTCGTCGTGTGATTTGTTTTATT 58.809 30.769 0.00 0.00 0.00 1.40
2499 6356 7.698970 AGTTTCGTCGTGTGATTTGTTTTATTT 59.301 29.630 0.00 0.00 0.00 1.40
2500 6357 6.961358 TCGTCGTGTGATTTGTTTTATTTG 57.039 33.333 0.00 0.00 0.00 2.32
2501 6358 6.487960 TCGTCGTGTGATTTGTTTTATTTGT 58.512 32.000 0.00 0.00 0.00 2.83
2502 6359 6.967767 TCGTCGTGTGATTTGTTTTATTTGTT 59.032 30.769 0.00 0.00 0.00 2.83
2503 6360 7.044641 TCGTCGTGTGATTTGTTTTATTTGTTG 60.045 33.333 0.00 0.00 0.00 3.33
2504 6361 6.838806 GTCGTGTGATTTGTTTTATTTGTTGC 59.161 34.615 0.00 0.00 0.00 4.17
2505 6362 6.531594 TCGTGTGATTTGTTTTATTTGTTGCA 59.468 30.769 0.00 0.00 0.00 4.08
2506 6363 7.223582 TCGTGTGATTTGTTTTATTTGTTGCAT 59.776 29.630 0.00 0.00 0.00 3.96
2507 6364 7.850003 CGTGTGATTTGTTTTATTTGTTGCATT 59.150 29.630 0.00 0.00 0.00 3.56
2508 6365 9.157259 GTGTGATTTGTTTTATTTGTTGCATTC 57.843 29.630 0.00 0.00 0.00 2.67
2509 6366 8.886719 TGTGATTTGTTTTATTTGTTGCATTCA 58.113 25.926 0.00 0.00 0.00 2.57
2510 6367 9.881529 GTGATTTGTTTTATTTGTTGCATTCAT 57.118 25.926 0.00 0.00 0.00 2.57
2512 6369 9.545611 GATTTGTTTTATTTGTTGCATTCATCC 57.454 29.630 0.00 0.00 0.00 3.51
2513 6370 8.674263 TTTGTTTTATTTGTTGCATTCATCCT 57.326 26.923 0.00 0.00 0.00 3.24
2514 6371 8.674263 TTGTTTTATTTGTTGCATTCATCCTT 57.326 26.923 0.00 0.00 0.00 3.36
2515 6372 8.085720 TGTTTTATTTGTTGCATTCATCCTTG 57.914 30.769 0.00 0.00 0.00 3.61
2516 6373 6.724694 TTTATTTGTTGCATTCATCCTTGC 57.275 33.333 0.00 0.00 39.33 4.01
2517 6374 3.747854 TTTGTTGCATTCATCCTTGCA 57.252 38.095 0.00 0.00 46.51 4.08
2522 6379 3.726291 TGCATTCATCCTTGCATCATG 57.274 42.857 0.00 0.00 43.54 3.07
2523 6380 3.028130 TGCATTCATCCTTGCATCATGT 58.972 40.909 0.00 0.00 43.54 3.21
2524 6381 3.181480 TGCATTCATCCTTGCATCATGTG 60.181 43.478 0.00 0.00 43.54 3.21
2537 6394 3.716601 CATCATGTGCATTGCATCATGT 58.283 40.909 30.80 22.83 42.56 3.21
2538 6395 3.430333 TCATGTGCATTGCATCATGTC 57.570 42.857 30.80 16.14 42.56 3.06
2539 6396 2.755655 TCATGTGCATTGCATCATGTCA 59.244 40.909 30.80 19.79 42.56 3.58
2540 6397 3.383185 TCATGTGCATTGCATCATGTCAT 59.617 39.130 30.80 20.73 42.56 3.06
2541 6398 3.430333 TGTGCATTGCATCATGTCATC 57.570 42.857 15.49 0.00 41.91 2.92
2542 6399 2.755655 TGTGCATTGCATCATGTCATCA 59.244 40.909 15.49 1.60 41.91 3.07
2543 6400 3.383185 TGTGCATTGCATCATGTCATCAT 59.617 39.130 15.49 0.00 41.91 2.45
2544 6401 3.735746 GTGCATTGCATCATGTCATCATG 59.264 43.478 15.49 0.00 41.91 3.07
2545 6402 3.798548 TGCATTGCATCATGTCATCATGC 60.799 43.478 14.26 14.26 41.34 4.06
2546 6403 6.817434 TGCATTGCATCATGTCATCATGCC 62.817 45.833 17.82 4.29 41.34 4.40
2556 6413 6.699575 CATGTCATCATGCCATCATATCAT 57.300 37.500 0.00 0.00 43.66 2.45
2557 6414 7.100458 CATGTCATCATGCCATCATATCATT 57.900 36.000 0.00 0.00 43.66 2.57
2558 6415 8.220755 CATGTCATCATGCCATCATATCATTA 57.779 34.615 0.00 0.00 43.66 1.90
2559 6416 8.682710 CATGTCATCATGCCATCATATCATTAA 58.317 33.333 0.00 0.00 43.66 1.40
2560 6417 8.817092 TGTCATCATGCCATCATATCATTAAT 57.183 30.769 0.00 0.00 0.00 1.40
2561 6418 9.250246 TGTCATCATGCCATCATATCATTAATT 57.750 29.630 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 38 2.221169 CAGTGACAGCAGGCAGTAAAA 58.779 47.619 0.00 0.00 0.00 1.52
439 521 6.373005 TTGATCTGTGGAAGGTTAGATTCA 57.627 37.500 0.00 0.00 30.49 2.57
544 637 1.211703 TGTGGTATGTGGGCTGTATGG 59.788 52.381 0.00 0.00 0.00 2.74
658 751 4.774124 TGGAGCACTTTTATGGATCTGAG 58.226 43.478 0.00 0.00 0.00 3.35
662 755 4.943705 TGTTCTGGAGCACTTTTATGGATC 59.056 41.667 0.00 0.00 0.00 3.36
667 760 5.376625 TGTTCTGTTCTGGAGCACTTTTAT 58.623 37.500 0.00 0.00 0.00 1.40
717 3174 4.152402 CGTGAAATTCAAAGTGATCGGAGT 59.848 41.667 0.00 0.00 0.00 3.85
722 3179 4.159377 TGCCGTGAAATTCAAAGTGATC 57.841 40.909 0.00 0.00 0.00 2.92
725 3182 2.988493 CCATGCCGTGAAATTCAAAGTG 59.012 45.455 0.00 0.00 0.00 3.16
825 3365 5.012561 GGAGAGTAATTGGCATGTCCTAGAT 59.987 44.000 0.00 0.00 35.26 1.98
1566 4109 3.977326 GGAGGTCAAGGATAATCTTCCCT 59.023 47.826 0.00 0.00 36.35 4.20
1641 4205 4.828072 AGAGGAGGTCAAGGATAAACAC 57.172 45.455 0.00 0.00 0.00 3.32
1860 4847 1.835531 ACCTCCGGTACCGATGAAATT 59.164 47.619 35.41 9.67 42.83 1.82
1946 4980 1.228245 GTGGAGCCTGTGGAAGCAA 60.228 57.895 0.00 0.00 0.00 3.91
1984 5021 3.979347 AGATTGGTGGATTAGAGCCAGAT 59.021 43.478 0.00 0.00 35.77 2.90
2015 5052 3.315470 GTGTGTCTATGCTCGACATCCTA 59.685 47.826 4.15 0.00 42.68 2.94
2016 5053 2.099921 GTGTGTCTATGCTCGACATCCT 59.900 50.000 4.15 0.00 42.68 3.24
2017 5054 2.099921 AGTGTGTCTATGCTCGACATCC 59.900 50.000 4.15 2.24 42.68 3.51
2018 5055 3.111838 CAGTGTGTCTATGCTCGACATC 58.888 50.000 4.15 4.55 42.68 3.06
2019 5056 2.159184 CCAGTGTGTCTATGCTCGACAT 60.159 50.000 6.58 5.92 42.68 3.06
2020 5057 1.202348 CCAGTGTGTCTATGCTCGACA 59.798 52.381 0.00 0.00 38.94 4.35
2021 5058 1.469940 CCCAGTGTGTCTATGCTCGAC 60.470 57.143 0.00 0.00 0.00 4.20
2022 5059 0.817654 CCCAGTGTGTCTATGCTCGA 59.182 55.000 0.00 0.00 0.00 4.04
2062 5144 2.104792 TCACTTGTTGTCAGGAAGAGGG 59.895 50.000 0.00 0.00 0.00 4.30
2141 5985 2.325583 AGAGTTTCGCTTGGTTGACA 57.674 45.000 0.00 0.00 0.00 3.58
2157 6001 1.064654 GGCTCCGCTTAAATGCAAGAG 59.935 52.381 0.00 0.00 36.59 2.85
2186 6031 1.674441 CCTACTGCGTCTACGATCCAA 59.326 52.381 6.71 0.00 43.02 3.53
2264 6120 0.466189 CACAGGCCCAACAGTGACTT 60.466 55.000 0.00 0.00 33.99 3.01
2267 6123 2.515398 CCACAGGCCCAACAGTGA 59.485 61.111 0.00 0.00 33.99 3.41
2274 6130 2.285368 CCTAGTCCCACAGGCCCA 60.285 66.667 0.00 0.00 0.00 5.36
2280 6136 0.042131 CTGGTACCCCTAGTCCCACA 59.958 60.000 10.07 0.00 29.99 4.17
2425 6282 0.810031 CGGTCTCGGGGCATTACAAG 60.810 60.000 0.00 0.00 0.00 3.16
2426 6283 1.219664 CGGTCTCGGGGCATTACAA 59.780 57.895 0.00 0.00 0.00 2.41
2427 6284 1.683025 TCGGTCTCGGGGCATTACA 60.683 57.895 0.00 0.00 36.95 2.41
2428 6285 1.227176 GTCGGTCTCGGGGCATTAC 60.227 63.158 0.00 0.00 36.95 1.89
2429 6286 2.777972 CGTCGGTCTCGGGGCATTA 61.778 63.158 0.00 0.00 36.95 1.90
2430 6287 4.143333 CGTCGGTCTCGGGGCATT 62.143 66.667 0.00 0.00 36.95 3.56
2436 6293 4.180946 CTGGAGCGTCGGTCTCGG 62.181 72.222 22.48 14.09 36.95 4.63
2437 6294 2.585170 CTTCTGGAGCGTCGGTCTCG 62.585 65.000 22.48 14.05 37.82 4.04
2438 6295 1.137825 CTTCTGGAGCGTCGGTCTC 59.862 63.158 22.48 13.69 0.00 3.36
2439 6296 1.303398 TCTTCTGGAGCGTCGGTCT 60.303 57.895 22.48 0.00 0.00 3.85
2440 6297 1.153997 GTCTTCTGGAGCGTCGGTC 60.154 63.158 15.95 15.95 0.00 4.79
2441 6298 1.179814 AAGTCTTCTGGAGCGTCGGT 61.180 55.000 0.00 0.00 0.00 4.69
2442 6299 0.456995 GAAGTCTTCTGGAGCGTCGG 60.457 60.000 5.27 0.00 0.00 4.79
2443 6300 0.456995 GGAAGTCTTCTGGAGCGTCG 60.457 60.000 12.31 0.00 0.00 5.12
2444 6301 0.603569 TGGAAGTCTTCTGGAGCGTC 59.396 55.000 12.31 0.00 0.00 5.19
2445 6302 0.605589 CTGGAAGTCTTCTGGAGCGT 59.394 55.000 12.31 0.00 0.00 5.07
2446 6303 0.739112 GCTGGAAGTCTTCTGGAGCG 60.739 60.000 12.31 0.00 35.30 5.03
2447 6304 0.612744 AGCTGGAAGTCTTCTGGAGC 59.387 55.000 12.31 15.31 35.30 4.70
2448 6305 4.442753 GGAATAGCTGGAAGTCTTCTGGAG 60.443 50.000 12.31 7.33 35.30 3.86
2449 6306 3.452627 GGAATAGCTGGAAGTCTTCTGGA 59.547 47.826 12.31 0.00 35.30 3.86
2450 6307 3.739519 CGGAATAGCTGGAAGTCTTCTGG 60.740 52.174 12.31 6.74 35.30 3.86
2451 6308 3.131223 TCGGAATAGCTGGAAGTCTTCTG 59.869 47.826 12.31 7.07 35.30 3.02
2452 6309 3.366396 TCGGAATAGCTGGAAGTCTTCT 58.634 45.455 12.31 0.00 35.30 2.85
2453 6310 3.131400 ACTCGGAATAGCTGGAAGTCTTC 59.869 47.826 3.80 3.80 35.30 2.87
2454 6311 3.100671 ACTCGGAATAGCTGGAAGTCTT 58.899 45.455 0.00 0.00 35.30 3.01
2455 6312 2.741145 ACTCGGAATAGCTGGAAGTCT 58.259 47.619 0.00 0.00 35.30 3.24
2456 6313 3.528597 AACTCGGAATAGCTGGAAGTC 57.471 47.619 0.00 0.00 35.30 3.01
2457 6314 3.676324 CGAAACTCGGAATAGCTGGAAGT 60.676 47.826 0.00 0.00 36.00 3.01
2458 6315 2.860735 CGAAACTCGGAATAGCTGGAAG 59.139 50.000 0.00 0.00 36.00 3.46
2459 6316 2.232941 ACGAAACTCGGAATAGCTGGAA 59.767 45.455 0.00 0.00 45.59 3.53
2460 6317 1.822990 ACGAAACTCGGAATAGCTGGA 59.177 47.619 0.00 0.00 45.59 3.86
2461 6318 2.194271 GACGAAACTCGGAATAGCTGG 58.806 52.381 0.00 0.00 45.59 4.85
2462 6319 1.846782 CGACGAAACTCGGAATAGCTG 59.153 52.381 0.00 0.00 45.59 4.24
2463 6320 1.471684 ACGACGAAACTCGGAATAGCT 59.528 47.619 0.00 0.00 45.59 3.32
2464 6321 1.582502 CACGACGAAACTCGGAATAGC 59.417 52.381 0.00 0.00 45.59 2.97
2465 6322 2.592897 CACACGACGAAACTCGGAATAG 59.407 50.000 0.00 0.00 45.59 1.73
2466 6323 2.226200 TCACACGACGAAACTCGGAATA 59.774 45.455 0.00 0.00 45.59 1.75
2467 6324 1.001048 TCACACGACGAAACTCGGAAT 60.001 47.619 0.00 0.00 45.59 3.01
2468 6325 0.381445 TCACACGACGAAACTCGGAA 59.619 50.000 0.00 0.00 45.59 4.30
2469 6326 0.594602 ATCACACGACGAAACTCGGA 59.405 50.000 0.00 0.00 45.59 4.55
2470 6327 1.415374 AATCACACGACGAAACTCGG 58.585 50.000 0.00 0.00 45.59 4.63
2471 6328 2.217847 ACAAATCACACGACGAAACTCG 59.782 45.455 0.00 0.00 46.93 4.18
2472 6329 3.854286 ACAAATCACACGACGAAACTC 57.146 42.857 0.00 0.00 0.00 3.01
2473 6330 4.609691 AAACAAATCACACGACGAAACT 57.390 36.364 0.00 0.00 0.00 2.66
2474 6331 6.963017 ATAAAACAAATCACACGACGAAAC 57.037 33.333 0.00 0.00 0.00 2.78
2475 6332 7.485277 ACAAATAAAACAAATCACACGACGAAA 59.515 29.630 0.00 0.00 0.00 3.46
2476 6333 6.967767 ACAAATAAAACAAATCACACGACGAA 59.032 30.769 0.00 0.00 0.00 3.85
2477 6334 6.487960 ACAAATAAAACAAATCACACGACGA 58.512 32.000 0.00 0.00 0.00 4.20
2478 6335 6.726035 ACAAATAAAACAAATCACACGACG 57.274 33.333 0.00 0.00 0.00 5.12
2479 6336 6.838806 GCAACAAATAAAACAAATCACACGAC 59.161 34.615 0.00 0.00 0.00 4.34
2480 6337 6.531594 TGCAACAAATAAAACAAATCACACGA 59.468 30.769 0.00 0.00 0.00 4.35
2481 6338 6.700020 TGCAACAAATAAAACAAATCACACG 58.300 32.000 0.00 0.00 0.00 4.49
2482 6339 9.157259 GAATGCAACAAATAAAACAAATCACAC 57.843 29.630 0.00 0.00 0.00 3.82
2483 6340 8.886719 TGAATGCAACAAATAAAACAAATCACA 58.113 25.926 0.00 0.00 0.00 3.58
2484 6341 9.881529 ATGAATGCAACAAATAAAACAAATCAC 57.118 25.926 0.00 0.00 0.00 3.06
2486 6343 9.545611 GGATGAATGCAACAAATAAAACAAATC 57.454 29.630 0.00 0.00 0.00 2.17
2487 6344 9.287373 AGGATGAATGCAACAAATAAAACAAAT 57.713 25.926 0.00 0.00 0.00 2.32
2488 6345 8.674263 AGGATGAATGCAACAAATAAAACAAA 57.326 26.923 0.00 0.00 0.00 2.83
2489 6346 8.557864 CAAGGATGAATGCAACAAATAAAACAA 58.442 29.630 0.00 0.00 0.00 2.83
2490 6347 7.307870 GCAAGGATGAATGCAACAAATAAAACA 60.308 33.333 0.00 0.00 42.12 2.83
2491 6348 7.017055 GCAAGGATGAATGCAACAAATAAAAC 58.983 34.615 0.00 0.00 42.12 2.43
2492 6349 7.131498 GCAAGGATGAATGCAACAAATAAAA 57.869 32.000 0.00 0.00 42.12 1.52
2493 6350 6.724694 GCAAGGATGAATGCAACAAATAAA 57.275 33.333 0.00 0.00 42.12 1.40
2503 6360 3.381045 CACATGATGCAAGGATGAATGC 58.619 45.455 0.00 0.00 42.86 3.56
2516 6373 3.716601 ACATGATGCAATGCACATGATG 58.283 40.909 34.56 23.49 43.53 3.07
2517 6374 3.383185 TGACATGATGCAATGCACATGAT 59.617 39.130 34.56 25.35 43.53 2.45
2518 6375 2.755655 TGACATGATGCAATGCACATGA 59.244 40.909 34.56 21.86 43.53 3.07
2519 6376 3.157932 TGACATGATGCAATGCACATG 57.842 42.857 30.32 30.32 44.81 3.21
2520 6377 3.383185 TGATGACATGATGCAATGCACAT 59.617 39.130 11.23 13.29 43.04 3.21
2521 6378 2.755655 TGATGACATGATGCAATGCACA 59.244 40.909 11.23 11.44 43.04 4.57
2522 6379 3.430333 TGATGACATGATGCAATGCAC 57.570 42.857 11.23 5.43 43.04 4.57
2525 6382 4.561326 ATGGCATGATGACATGATGCAATG 60.561 41.667 31.93 11.07 46.11 2.82
2526 6383 3.578282 ATGGCATGATGACATGATGCAAT 59.422 39.130 31.93 26.49 46.11 3.56
2527 6384 2.962421 ATGGCATGATGACATGATGCAA 59.038 40.909 31.93 25.60 46.11 4.08
2528 6385 2.593026 ATGGCATGATGACATGATGCA 58.407 42.857 31.93 21.63 46.11 3.96
2535 6392 8.817092 ATTAATGATATGATGGCATGATGACA 57.183 30.769 2.18 2.18 41.29 3.58


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

AutoCloner maintained by Alex Coulton.