Multiple sequence alignment - TraesCS2D01G449400

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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 TraesCS2D01G449400 chr2D 100.000 2792 0 0 1 2792 558978873 558976082 0.000000e+00 5156.0
1 TraesCS2D01G449400 chr2D 91.250 1040 70 15 986 2016 559002250 559001223 0.000000e+00 1397.0
2 TraesCS2D01G449400 chr2D 84.086 465 52 17 519 973 559207923 559207471 1.990000e-116 429.0
3 TraesCS2D01G449400 chr2D 87.574 338 42 0 1046 1383 50014248 50014585 2.610000e-105 392.0
4 TraesCS2D01G449400 chr2D 83.042 401 41 7 2017 2415 559000939 559000564 3.440000e-89 339.0
5 TraesCS2D01G449400 chr2B 90.046 1316 105 15 986 2295 668052553 668051258 0.000000e+00 1681.0
6 TraesCS2D01G449400 chr2B 86.886 1548 101 44 520 1985 668172397 668170870 0.000000e+00 1640.0
7 TraesCS2D01G449400 chr2B 91.585 511 36 4 3 509 306872954 306873461 0.000000e+00 699.0
8 TraesCS2D01G449400 chr2B 90.909 66 5 1 2415 2479 70261782 70261717 1.380000e-13 87.9
9 TraesCS2D01G449400 chr2B 88.060 67 6 1 2415 2479 70046996 70046930 8.290000e-11 78.7
10 TraesCS2D01G449400 chr2A 90.198 1010 61 16 986 1988 699642031 699641053 0.000000e+00 1282.0
11 TraesCS2D01G449400 chr2A 95.844 794 28 2 1251 2041 699605833 699605042 0.000000e+00 1279.0
12 TraesCS2D01G449400 chr2A 91.468 586 24 10 646 1212 699606408 699605830 0.000000e+00 782.0
13 TraesCS2D01G449400 chr2A 90.669 493 40 3 3 491 139391476 139391966 0.000000e+00 651.0
14 TraesCS2D01G449400 chr2A 94.823 367 16 2 291 657 699611963 699611600 1.120000e-158 569.0
15 TraesCS2D01G449400 chr2A 91.319 288 13 3 2128 2415 699603275 699603000 1.570000e-102 383.0
16 TraesCS2D01G449400 chr2A 92.885 253 14 2 3 251 699621944 699621692 5.680000e-97 364.0
17 TraesCS2D01G449400 chr2A 83.537 328 28 6 2089 2415 699641053 699640751 1.640000e-72 283.0
18 TraesCS2D01G449400 chr2A 98.214 56 1 0 2077 2132 699605045 699604990 6.360000e-17 99.0
19 TraesCS2D01G449400 chr2A 98.077 52 1 0 257 308 699612341 699612290 1.060000e-14 91.6
20 TraesCS2D01G449400 chr4A 91.389 511 39 2 3 509 727410139 727410648 0.000000e+00 695.0
21 TraesCS2D01G449400 chr5A 90.607 511 43 2 3 509 696355198 696354689 0.000000e+00 673.0
22 TraesCS2D01G449400 chr5A 89.180 305 24 6 2494 2792 568804319 568804018 3.400000e-99 372.0
23 TraesCS2D01G449400 chr3D 93.077 390 11 7 2415 2790 141596798 141596411 8.740000e-155 556.0
24 TraesCS2D01G449400 chr3D 85.507 69 9 1 2413 2480 434915252 434915320 1.390000e-08 71.3
25 TraesCS2D01G449400 chr7A 94.333 300 10 3 2494 2790 524200450 524200745 1.180000e-123 453.0
26 TraesCS2D01G449400 chr6A 93.770 305 10 5 2494 2792 152824123 152824424 1.530000e-122 449.0
27 TraesCS2D01G449400 chr6A 93.046 302 11 6 2494 2789 152796952 152797249 1.540000e-117 433.0
28 TraesCS2D01G449400 chr6A 83.333 78 9 3 2407 2481 87240102 87240026 4.990000e-08 69.4
29 TraesCS2D01G449400 chr7D 90.604 298 25 2 2490 2784 366740448 366740151 2.610000e-105 392.0
30 TraesCS2D01G449400 chr7D 88.000 125 15 0 1010 1134 184536779 184536903 6.230000e-32 148.0
31 TraesCS2D01G449400 chr7D 90.625 64 5 1 2415 2477 366740494 366740431 1.780000e-12 84.2
32 TraesCS2D01G449400 chr3A 89.735 302 23 8 2494 2790 609746447 609746149 2.030000e-101 379.0
33 TraesCS2D01G449400 chr3A 86.176 340 34 8 3 342 713901668 713901342 3.420000e-94 355.0
34 TraesCS2D01G449400 chr3A 91.000 100 9 0 410 509 713901345 713901246 4.850000e-28 135.0
35 TraesCS2D01G449400 chr4D 88.889 306 24 7 2494 2792 58648110 58647808 4.390000e-98 368.0
36 TraesCS2D01G449400 chr1B 88.040 301 26 5 2496 2792 502249895 502250189 5.720000e-92 348.0
37 TraesCS2D01G449400 chr1B 89.706 68 7 0 2413 2480 502249842 502249909 1.380000e-13 87.9
38 TraesCS2D01G449400 chr6D 94.340 53 3 0 2401 2453 455495847 455495795 6.410000e-12 82.4
39 TraesCS2D01G449400 chr3B 91.525 59 4 1 2413 2470 697163545 697163603 2.310000e-11 80.5
40 TraesCS2D01G449400 chr6B 88.060 67 7 1 2414 2479 266873205 266873139 8.290000e-11 78.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G449400 chr2D 558976082 558978873 2791 True 5156.00 5156 100.00000 1 2792 1 chr2D.!!$R1 2791
1 TraesCS2D01G449400 chr2D 559000564 559002250 1686 True 868.00 1397 87.14600 986 2415 2 chr2D.!!$R3 1429
2 TraesCS2D01G449400 chr2B 668051258 668052553 1295 True 1681.00 1681 90.04600 986 2295 1 chr2B.!!$R3 1309
3 TraesCS2D01G449400 chr2B 668170870 668172397 1527 True 1640.00 1640 86.88600 520 1985 1 chr2B.!!$R4 1465
4 TraesCS2D01G449400 chr2B 306872954 306873461 507 False 699.00 699 91.58500 3 509 1 chr2B.!!$F1 506
5 TraesCS2D01G449400 chr2A 699640751 699642031 1280 True 782.50 1282 86.86750 986 2415 2 chr2A.!!$R4 1429
6 TraesCS2D01G449400 chr2A 699603000 699606408 3408 True 635.75 1279 94.21125 646 2415 4 chr2A.!!$R2 1769
7 TraesCS2D01G449400 chr2A 699611600 699612341 741 True 330.30 569 96.45000 257 657 2 chr2A.!!$R3 400
8 TraesCS2D01G449400 chr4A 727410139 727410648 509 False 695.00 695 91.38900 3 509 1 chr4A.!!$F1 506
9 TraesCS2D01G449400 chr5A 696354689 696355198 509 True 673.00 673 90.60700 3 509 1 chr5A.!!$R2 506

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
667 1039 0.035317 TACTGTGCACTTCCCTGCTG 59.965 55.0 19.41 0.0 38.07 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2439 4894 0.036306 ATGTCTCTTTTTCGCCCGGT 59.964 50.0 0.0 0.0 0.0 5.28 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
49 50 8.992835 AGCAGAAATCACAGAAATAAAATTCC 57.007 30.769 0.00 0.00 0.00 3.01
85 86 7.014230 AGCTTGCTACTTTCTTTCCATTTGTTA 59.986 33.333 0.00 0.00 0.00 2.41
108 109 5.305585 ACGTGTCCTTGTTGTCTATTTGAT 58.694 37.500 0.00 0.00 0.00 2.57
116 117 6.291849 CCTTGTTGTCTATTTGATCGATCGAC 60.292 42.308 22.06 18.92 0.00 4.20
142 143 8.865001 CGAAATGTTTTGAGTTAAAAAGGTCAA 58.135 29.630 0.00 0.00 39.79 3.18
143 144 9.967245 GAAATGTTTTGAGTTAAAAAGGTCAAC 57.033 29.630 0.00 0.00 39.79 3.18
155 156 1.629043 AGGTCAACGGAGACAAGCTA 58.371 50.000 10.94 0.00 40.29 3.32
191 193 5.007921 AGCAACTAAAAACCGACGTATGTTT 59.992 36.000 8.63 8.63 36.29 2.83
221 227 4.202050 GGCCATGTTGACTTGCTAATTAGG 60.202 45.833 14.28 0.48 0.00 2.69
237 243 7.922278 TGCTAATTAGGTTTACATACACCTACG 59.078 37.037 14.28 0.00 43.97 3.51
252 258 9.268268 CATACACCTACGAACATTATTACCATT 57.732 33.333 0.00 0.00 0.00 3.16
255 261 7.066525 ACACCTACGAACATTATTACCATTTGG 59.933 37.037 0.00 0.00 42.17 3.28
443 793 7.595819 TCAAAGTGGTTGAACTCCATTAATT 57.404 32.000 0.00 0.00 43.43 1.40
444 794 8.017418 TCAAAGTGGTTGAACTCCATTAATTT 57.983 30.769 0.00 0.00 43.43 1.82
459 809 7.576403 TCCATTAATTTGATCTGGATGACTGA 58.424 34.615 0.00 0.00 31.19 3.41
492 842 0.898320 CTCCTGTTCCGATGGACACT 59.102 55.000 0.00 0.00 0.00 3.55
539 889 6.765512 AGCATTAGAGAAGTTCTATTCCTTGC 59.234 38.462 5.09 10.39 38.19 4.01
591 963 4.813296 ATTCGCTCCGTTCCAAAATATC 57.187 40.909 0.00 0.00 0.00 1.63
633 1005 7.613411 TCTGTAGATTCGATCATATCTGTGGAT 59.387 37.037 13.97 0.00 33.38 3.41
667 1039 0.035317 TACTGTGCACTTCCCTGCTG 59.965 55.000 19.41 0.00 38.07 4.41
749 1127 2.633488 GTCCCTTTGCGAGCTCTAAAT 58.367 47.619 12.85 0.00 0.00 1.40
787 1165 4.858680 TGGCAACGGGCACGAACA 62.859 61.111 19.19 4.98 45.76 3.18
789 1167 4.659874 GCAACGGGCACGAACACG 62.660 66.667 19.19 0.00 44.60 4.49
790 1168 3.266376 CAACGGGCACGAACACGT 61.266 61.111 19.19 3.97 44.60 4.49
791 1169 2.963320 AACGGGCACGAACACGTC 60.963 61.111 19.19 0.00 44.60 4.34
795 1173 3.698463 GGCACGAACACGTCCACG 61.698 66.667 0.00 0.00 46.33 4.94
900 1296 2.423231 CCATGACAATACCCCATCTGCA 60.423 50.000 0.00 0.00 0.00 4.41
911 1307 1.815003 CCCATCTGCACACTTTTCCTC 59.185 52.381 0.00 0.00 0.00 3.71
943 1347 3.311106 CCGCATGCATAAATAAAGCCAG 58.689 45.455 19.57 0.00 0.00 4.85
944 1348 3.004629 CCGCATGCATAAATAAAGCCAGA 59.995 43.478 19.57 0.00 0.00 3.86
945 1349 3.976942 CGCATGCATAAATAAAGCCAGAC 59.023 43.478 19.57 0.00 0.00 3.51
1003 1422 4.986645 TGCTCGGCGCACACATGT 62.987 61.111 10.83 0.00 45.47 3.21
1004 1423 4.152625 GCTCGGCGCACACATGTC 62.153 66.667 10.83 0.00 38.92 3.06
1008 1427 3.041351 GGCGCACACATGTCGTCA 61.041 61.111 10.83 0.00 32.53 4.35
1020 1445 1.323271 TGTCGTCATCCTCCTCTGCC 61.323 60.000 0.00 0.00 0.00 4.85
1713 2138 0.030297 AGGTGAGGGAGATGGCTGAT 60.030 55.000 0.00 0.00 0.00 2.90
2045 2780 6.321435 TCTGTATTGATCGTCATCCTACACTT 59.679 38.462 0.00 0.00 29.55 3.16
2047 2782 7.327975 TGTATTGATCGTCATCCTACACTTTT 58.672 34.615 0.00 0.00 0.00 2.27
2048 2783 7.822334 TGTATTGATCGTCATCCTACACTTTTT 59.178 33.333 0.00 0.00 0.00 1.94
2281 4736 4.997395 GCCACTCATTATGTTCGTCCATAT 59.003 41.667 0.00 0.00 0.00 1.78
2385 4840 1.999071 TTGACAAGTGGCGCACAACC 61.999 55.000 10.83 0.00 36.74 3.77
2387 4842 0.882927 GACAAGTGGCGCACAACCTA 60.883 55.000 10.83 0.00 36.74 3.08
2430 4885 8.428186 TTTAGATTTACTAGTACAAATGCCCG 57.572 34.615 8.10 0.00 32.30 6.13
2431 4886 5.985911 AGATTTACTAGTACAAATGCCCGT 58.014 37.500 8.10 0.00 0.00 5.28
2432 4887 5.815740 AGATTTACTAGTACAAATGCCCGTG 59.184 40.000 8.10 0.00 0.00 4.94
2433 4888 1.734163 ACTAGTACAAATGCCCGTGC 58.266 50.000 0.00 0.00 38.26 5.34
2454 4909 2.561373 GCACCGGGCGAAAAAGAG 59.439 61.111 6.32 0.00 0.00 2.85
2455 4910 1.964373 GCACCGGGCGAAAAAGAGA 60.964 57.895 6.32 0.00 0.00 3.10
2456 4911 1.866925 CACCGGGCGAAAAAGAGAC 59.133 57.895 6.32 0.00 0.00 3.36
2457 4912 0.882927 CACCGGGCGAAAAAGAGACA 60.883 55.000 6.32 0.00 0.00 3.41
2458 4913 0.036306 ACCGGGCGAAAAAGAGACAT 59.964 50.000 6.32 0.00 0.00 3.06
2459 4914 1.276989 ACCGGGCGAAAAAGAGACATA 59.723 47.619 6.32 0.00 0.00 2.29
2460 4915 2.289819 ACCGGGCGAAAAAGAGACATAA 60.290 45.455 6.32 0.00 0.00 1.90
2461 4916 2.095372 CCGGGCGAAAAAGAGACATAAC 59.905 50.000 0.00 0.00 0.00 1.89
2462 4917 2.095372 CGGGCGAAAAAGAGACATAACC 59.905 50.000 0.00 0.00 0.00 2.85
2463 4918 3.078837 GGGCGAAAAAGAGACATAACCA 58.921 45.455 0.00 0.00 0.00 3.67
2464 4919 3.127030 GGGCGAAAAAGAGACATAACCAG 59.873 47.826 0.00 0.00 0.00 4.00
2465 4920 3.426292 GGCGAAAAAGAGACATAACCAGC 60.426 47.826 0.00 0.00 0.00 4.85
2466 4921 3.437049 GCGAAAAAGAGACATAACCAGCT 59.563 43.478 0.00 0.00 0.00 4.24
2467 4922 4.436183 GCGAAAAAGAGACATAACCAGCTC 60.436 45.833 0.00 0.00 0.00 4.09
2468 4923 4.093556 CGAAAAAGAGACATAACCAGCTCC 59.906 45.833 0.00 0.00 0.00 4.70
2469 4924 4.640771 AAAAGAGACATAACCAGCTCCA 57.359 40.909 0.00 0.00 0.00 3.86
2470 4925 4.851639 AAAGAGACATAACCAGCTCCAT 57.148 40.909 0.00 0.00 0.00 3.41
2471 4926 5.957771 AAAGAGACATAACCAGCTCCATA 57.042 39.130 0.00 0.00 0.00 2.74
2472 4927 6.506538 AAAGAGACATAACCAGCTCCATAT 57.493 37.500 0.00 0.00 0.00 1.78
2473 4928 6.506538 AAGAGACATAACCAGCTCCATATT 57.493 37.500 0.00 0.00 0.00 1.28
2474 4929 6.506538 AGAGACATAACCAGCTCCATATTT 57.493 37.500 0.00 0.00 0.00 1.40
2475 4930 6.529220 AGAGACATAACCAGCTCCATATTTC 58.471 40.000 0.00 0.00 0.00 2.17
2476 4931 6.100279 AGAGACATAACCAGCTCCATATTTCA 59.900 38.462 0.00 0.00 0.00 2.69
2477 4932 6.845908 AGACATAACCAGCTCCATATTTCAT 58.154 36.000 0.00 0.00 0.00 2.57
2478 4933 7.293073 AGACATAACCAGCTCCATATTTCATT 58.707 34.615 0.00 0.00 0.00 2.57
2479 4934 8.439971 AGACATAACCAGCTCCATATTTCATTA 58.560 33.333 0.00 0.00 0.00 1.90
2480 4935 8.396272 ACATAACCAGCTCCATATTTCATTAC 57.604 34.615 0.00 0.00 0.00 1.89
2481 4936 7.448469 ACATAACCAGCTCCATATTTCATTACC 59.552 37.037 0.00 0.00 0.00 2.85
2482 4937 4.729868 ACCAGCTCCATATTTCATTACCC 58.270 43.478 0.00 0.00 0.00 3.69
2483 4938 3.753272 CCAGCTCCATATTTCATTACCCG 59.247 47.826 0.00 0.00 0.00 5.28
2484 4939 3.189287 CAGCTCCATATTTCATTACCCGC 59.811 47.826 0.00 0.00 0.00 6.13
2485 4940 3.146066 GCTCCATATTTCATTACCCGCA 58.854 45.455 0.00 0.00 0.00 5.69
2486 4941 3.568007 GCTCCATATTTCATTACCCGCAA 59.432 43.478 0.00 0.00 0.00 4.85
2487 4942 4.037446 GCTCCATATTTCATTACCCGCAAA 59.963 41.667 0.00 0.00 0.00 3.68
2488 4943 5.451242 GCTCCATATTTCATTACCCGCAAAA 60.451 40.000 0.00 0.00 0.00 2.44
2489 4944 6.531503 TCCATATTTCATTACCCGCAAAAA 57.468 33.333 0.00 0.00 0.00 1.94
2512 4967 6.973229 AAAAAGCTCCATATTTCATTGTGC 57.027 33.333 0.00 0.00 0.00 4.57
2513 4968 5.664294 AAAGCTCCATATTTCATTGTGCA 57.336 34.783 0.00 0.00 0.00 4.57
2514 4969 4.644103 AGCTCCATATTTCATTGTGCAC 57.356 40.909 10.75 10.75 0.00 4.57
2515 4970 4.275810 AGCTCCATATTTCATTGTGCACT 58.724 39.130 19.41 0.00 0.00 4.40
2516 4971 5.439721 AGCTCCATATTTCATTGTGCACTA 58.560 37.500 19.41 11.52 0.00 2.74
2517 4972 6.066690 AGCTCCATATTTCATTGTGCACTAT 58.933 36.000 19.41 13.64 0.00 2.12
2518 4973 6.548622 AGCTCCATATTTCATTGTGCACTATT 59.451 34.615 19.41 3.44 0.00 1.73
2519 4974 7.069085 AGCTCCATATTTCATTGTGCACTATTT 59.931 33.333 19.41 3.58 0.00 1.40
2520 4975 7.707893 GCTCCATATTTCATTGTGCACTATTTT 59.292 33.333 19.41 3.24 0.00 1.82
2591 5046 7.769272 TTGCTTTTTGTAGAATCAAGTTTGG 57.231 32.000 0.00 0.00 0.00 3.28
2592 5047 7.106439 TGCTTTTTGTAGAATCAAGTTTGGA 57.894 32.000 0.00 0.00 0.00 3.53
2593 5048 6.978080 TGCTTTTTGTAGAATCAAGTTTGGAC 59.022 34.615 0.00 0.00 0.00 4.02
2594 5049 6.420903 GCTTTTTGTAGAATCAAGTTTGGACC 59.579 38.462 0.00 0.00 0.00 4.46
2595 5050 7.654022 TTTTTGTAGAATCAAGTTTGGACCT 57.346 32.000 0.00 0.00 0.00 3.85
2596 5051 6.633500 TTTGTAGAATCAAGTTTGGACCTG 57.367 37.500 0.00 0.00 0.00 4.00
2597 5052 5.560722 TGTAGAATCAAGTTTGGACCTGA 57.439 39.130 0.00 0.00 31.18 3.86
2598 5053 5.935945 TGTAGAATCAAGTTTGGACCTGAA 58.064 37.500 0.00 0.00 30.46 3.02
2599 5054 5.997746 TGTAGAATCAAGTTTGGACCTGAAG 59.002 40.000 0.00 0.00 30.46 3.02
2600 5055 5.310409 AGAATCAAGTTTGGACCTGAAGA 57.690 39.130 0.00 0.00 30.46 2.87
2601 5056 5.312079 AGAATCAAGTTTGGACCTGAAGAG 58.688 41.667 0.00 0.00 30.46 2.85
2602 5057 4.982241 ATCAAGTTTGGACCTGAAGAGA 57.018 40.909 0.00 0.00 30.46 3.10
2603 5058 4.073293 TCAAGTTTGGACCTGAAGAGAC 57.927 45.455 0.00 0.00 0.00 3.36
2604 5059 3.142174 CAAGTTTGGACCTGAAGAGACC 58.858 50.000 0.00 0.00 0.00 3.85
2605 5060 2.408565 AGTTTGGACCTGAAGAGACCA 58.591 47.619 0.00 0.00 0.00 4.02
2606 5061 2.777692 AGTTTGGACCTGAAGAGACCAA 59.222 45.455 0.00 0.00 35.30 3.67
2607 5062 2.879026 GTTTGGACCTGAAGAGACCAAC 59.121 50.000 0.00 0.00 36.16 3.77
2608 5063 2.103153 TGGACCTGAAGAGACCAACT 57.897 50.000 0.00 0.00 0.00 3.16
2609 5064 2.408565 TGGACCTGAAGAGACCAACTT 58.591 47.619 0.00 0.00 0.00 2.66
2610 5065 3.583228 TGGACCTGAAGAGACCAACTTA 58.417 45.455 0.00 0.00 0.00 2.24
2611 5066 3.578716 TGGACCTGAAGAGACCAACTTAG 59.421 47.826 0.00 0.00 0.00 2.18
2612 5067 3.591023 GACCTGAAGAGACCAACTTAGC 58.409 50.000 0.00 0.00 0.00 3.09
2613 5068 2.028930 ACCTGAAGAGACCAACTTAGCG 60.029 50.000 0.00 0.00 0.00 4.26
2614 5069 2.028930 CCTGAAGAGACCAACTTAGCGT 60.029 50.000 0.00 0.00 0.00 5.07
2615 5070 3.555168 CCTGAAGAGACCAACTTAGCGTT 60.555 47.826 0.00 0.00 35.88 4.84
2616 5071 3.650139 TGAAGAGACCAACTTAGCGTTC 58.350 45.455 0.00 0.00 32.27 3.95
2617 5072 3.321111 TGAAGAGACCAACTTAGCGTTCT 59.679 43.478 0.00 0.00 32.27 3.01
2618 5073 4.202223 TGAAGAGACCAACTTAGCGTTCTT 60.202 41.667 0.00 0.00 32.27 2.52
2619 5074 3.915536 AGAGACCAACTTAGCGTTCTTC 58.084 45.455 0.00 0.00 32.27 2.87
2620 5075 2.662156 GAGACCAACTTAGCGTTCTTCG 59.338 50.000 0.00 0.00 43.12 3.79
2621 5076 2.035576 AGACCAACTTAGCGTTCTTCGT 59.964 45.455 0.00 0.00 42.13 3.85
2622 5077 2.401351 ACCAACTTAGCGTTCTTCGTC 58.599 47.619 0.00 0.00 42.13 4.20
2623 5078 2.223876 ACCAACTTAGCGTTCTTCGTCA 60.224 45.455 0.00 0.00 42.13 4.35
2624 5079 2.408704 CCAACTTAGCGTTCTTCGTCAG 59.591 50.000 0.00 0.00 42.13 3.51
2625 5080 3.050619 CAACTTAGCGTTCTTCGTCAGT 58.949 45.455 0.00 0.00 42.13 3.41
2626 5081 3.366440 ACTTAGCGTTCTTCGTCAGTT 57.634 42.857 0.00 0.00 42.13 3.16
2627 5082 3.050619 ACTTAGCGTTCTTCGTCAGTTG 58.949 45.455 0.00 0.00 42.13 3.16
2628 5083 1.415374 TAGCGTTCTTCGTCAGTTGC 58.585 50.000 0.00 0.00 42.13 4.17
2629 5084 0.529773 AGCGTTCTTCGTCAGTTGCA 60.530 50.000 0.00 0.00 42.13 4.08
2630 5085 0.303493 GCGTTCTTCGTCAGTTGCAA 59.697 50.000 0.00 0.00 42.13 4.08
2631 5086 1.657538 GCGTTCTTCGTCAGTTGCAAG 60.658 52.381 0.00 0.00 42.13 4.01
2632 5087 1.858458 CGTTCTTCGTCAGTTGCAAGA 59.142 47.619 0.00 0.00 34.52 3.02
2633 5088 2.097202 CGTTCTTCGTCAGTTGCAAGAG 60.097 50.000 0.00 0.00 34.52 2.85
2634 5089 1.502231 TCTTCGTCAGTTGCAAGAGC 58.498 50.000 0.00 0.00 42.57 4.09
2654 5109 3.996150 CAGTCTTGCATGGAAGTTTGT 57.004 42.857 24.15 7.00 0.00 2.83
2655 5110 3.893720 CAGTCTTGCATGGAAGTTTGTC 58.106 45.455 24.15 11.92 0.00 3.18
2656 5111 3.316029 CAGTCTTGCATGGAAGTTTGTCA 59.684 43.478 24.15 3.41 0.00 3.58
2657 5112 3.953612 AGTCTTGCATGGAAGTTTGTCAA 59.046 39.130 24.15 2.70 0.00 3.18
2658 5113 4.586001 AGTCTTGCATGGAAGTTTGTCAAT 59.414 37.500 24.15 2.79 0.00 2.57
2659 5114 4.919754 GTCTTGCATGGAAGTTTGTCAATC 59.080 41.667 24.15 4.27 0.00 2.67
2660 5115 3.557577 TGCATGGAAGTTTGTCAATCG 57.442 42.857 0.00 0.00 0.00 3.34
2661 5116 2.884012 TGCATGGAAGTTTGTCAATCGT 59.116 40.909 0.00 0.00 0.00 3.73
2662 5117 3.317711 TGCATGGAAGTTTGTCAATCGTT 59.682 39.130 0.00 0.00 0.00 3.85
2663 5118 4.202101 TGCATGGAAGTTTGTCAATCGTTT 60.202 37.500 0.00 0.00 0.00 3.60
2664 5119 4.744631 GCATGGAAGTTTGTCAATCGTTTT 59.255 37.500 0.00 0.00 0.00 2.43
2665 5120 5.234116 GCATGGAAGTTTGTCAATCGTTTTT 59.766 36.000 0.00 0.00 0.00 1.94
2690 5145 5.350504 TTTTGGCTTTTCTGGAAACATGA 57.649 34.783 0.00 0.00 41.51 3.07
2691 5146 5.350504 TTTGGCTTTTCTGGAAACATGAA 57.649 34.783 0.00 0.00 41.51 2.57
2692 5147 5.350504 TTGGCTTTTCTGGAAACATGAAA 57.649 34.783 0.00 0.00 41.51 2.69
2693 5148 5.350504 TGGCTTTTCTGGAAACATGAAAA 57.649 34.783 0.00 0.00 41.14 2.29
2694 5149 5.927819 TGGCTTTTCTGGAAACATGAAAAT 58.072 33.333 0.00 0.00 41.79 1.82
2695 5150 6.355747 TGGCTTTTCTGGAAACATGAAAATT 58.644 32.000 0.00 0.00 41.79 1.82
2696 5151 6.827762 TGGCTTTTCTGGAAACATGAAAATTT 59.172 30.769 0.00 0.00 41.79 1.82
2697 5152 7.012232 TGGCTTTTCTGGAAACATGAAAATTTC 59.988 33.333 0.00 0.00 41.79 2.17
2743 5198 9.758651 AGGTTTACATAAAAATTGGAACACTTC 57.241 29.630 0.00 0.00 39.29 3.01
2744 5199 9.758651 GGTTTACATAAAAATTGGAACACTTCT 57.241 29.630 0.00 0.00 39.29 2.85
2760 5215 9.595357 GGAACACTTCTTTAAGAATCTTAAACG 57.405 33.333 20.57 16.61 33.13 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 6.478512 TTTCATTTTGTGGAACCTAGCTTT 57.521 33.333 0.00 0.00 34.36 3.51
48 49 4.946784 AGTAGCAAGCTGTTAAATTCGG 57.053 40.909 4.53 0.00 0.00 4.30
49 50 6.603095 AGAAAGTAGCAAGCTGTTAAATTCG 58.397 36.000 4.53 0.00 0.00 3.34
85 86 4.699637 TCAAATAGACAACAAGGACACGT 58.300 39.130 0.00 0.00 0.00 4.49
116 117 8.401046 TGACCTTTTTAACTCAAAACATTTCG 57.599 30.769 0.00 0.00 35.84 3.46
118 119 8.652463 CGTTGACCTTTTTAACTCAAAACATTT 58.348 29.630 0.00 0.00 35.84 2.32
119 120 7.276878 CCGTTGACCTTTTTAACTCAAAACATT 59.723 33.333 0.00 0.00 35.84 2.71
123 124 6.374894 TCTCCGTTGACCTTTTTAACTCAAAA 59.625 34.615 0.00 0.00 34.26 2.44
142 143 3.762288 TCAGTTATGTAGCTTGTCTCCGT 59.238 43.478 0.00 0.00 0.00 4.69
143 144 4.106197 GTCAGTTATGTAGCTTGTCTCCG 58.894 47.826 0.00 0.00 0.00 4.63
155 156 6.238925 GGTTTTTAGTTGCTGGTCAGTTATGT 60.239 38.462 0.00 0.00 0.00 2.29
191 193 0.981183 AGTCAACATGGCCTCGGTTA 59.019 50.000 3.32 0.00 0.00 2.85
252 258 7.759489 AAGTAATAGCAATTCACTTGACCAA 57.241 32.000 0.00 0.00 36.97 3.67
255 261 7.121315 AGGGAAAGTAATAGCAATTCACTTGAC 59.879 37.037 0.00 0.00 36.97 3.18
443 793 2.842496 AGGCTTCAGTCATCCAGATCAA 59.158 45.455 0.00 0.00 0.00 2.57
444 794 2.169978 CAGGCTTCAGTCATCCAGATCA 59.830 50.000 0.00 0.00 0.00 2.92
459 809 2.285743 GGAGGGAGGGTCAGGCTT 60.286 66.667 0.00 0.00 0.00 4.35
492 842 5.414454 GCTTTACATTGGTGTATTCCTGTGA 59.586 40.000 0.00 0.00 40.35 3.58
591 963 5.470368 TCTACAGAATTTTGACTCCGACAG 58.530 41.667 2.48 0.00 0.00 3.51
633 1005 4.693283 GCACAGTAGATGCAGGTAATGTA 58.307 43.478 9.97 0.00 42.88 2.29
706 1084 1.201965 CGACTCGCAGCTTTGATTTCC 60.202 52.381 0.00 0.00 0.00 3.13
787 1165 0.895530 AGATGATGTTCCGTGGACGT 59.104 50.000 0.00 0.00 37.74 4.34
788 1166 1.927174 GAAGATGATGTTCCGTGGACG 59.073 52.381 0.00 0.00 39.44 4.79
789 1167 3.190874 GAGAAGATGATGTTCCGTGGAC 58.809 50.000 0.00 0.00 0.00 4.02
790 1168 2.168521 GGAGAAGATGATGTTCCGTGGA 59.831 50.000 0.00 0.00 0.00 4.02
791 1169 2.555199 GGAGAAGATGATGTTCCGTGG 58.445 52.381 0.00 0.00 0.00 4.94
795 1173 2.208431 CTGCGGAGAAGATGATGTTCC 58.792 52.381 0.00 0.00 0.00 3.62
860 1244 3.047718 CTGATGCAACGCTGGCAGG 62.048 63.158 17.64 9.00 45.68 4.85
862 1246 3.740397 GCTGATGCAACGCTGGCA 61.740 61.111 0.00 0.00 46.66 4.92
863 1247 4.487412 GGCTGATGCAACGCTGGC 62.487 66.667 9.72 6.54 41.91 4.85
943 1347 1.146358 GCTTGATGGTACGCCTCGTC 61.146 60.000 0.00 0.00 41.54 4.20
944 1348 1.153628 GCTTGATGGTACGCCTCGT 60.154 57.895 0.00 0.00 44.35 4.18
945 1349 1.148157 CTGCTTGATGGTACGCCTCG 61.148 60.000 0.00 0.00 35.27 4.63
1002 1421 1.439644 GGCAGAGGAGGATGACGAC 59.560 63.158 0.00 0.00 0.00 4.34
1003 1422 1.758514 GGGCAGAGGAGGATGACGA 60.759 63.158 0.00 0.00 0.00 4.20
1004 1423 2.801631 GGGGCAGAGGAGGATGACG 61.802 68.421 0.00 0.00 0.00 4.35
1008 1427 2.771762 GCTGGGGCAGAGGAGGAT 60.772 66.667 0.00 0.00 38.54 3.24
1500 1925 1.310933 GCGTGTAGTCCTCCTCGGAA 61.311 60.000 0.00 0.00 45.32 4.30
2052 2787 7.872483 AGGCACGAAGTAAAATTCAAAATTGAT 59.128 29.630 0.00 0.00 41.61 2.57
2053 2788 7.206687 AGGCACGAAGTAAAATTCAAAATTGA 58.793 30.769 0.00 0.00 41.61 2.57
2054 2789 7.406799 AGGCACGAAGTAAAATTCAAAATTG 57.593 32.000 0.00 0.00 41.61 2.32
2056 2791 8.519526 TCATAGGCACGAAGTAAAATTCAAAAT 58.480 29.630 0.00 0.00 41.61 1.82
2061 2796 7.307811 GGGTATCATAGGCACGAAGTAAAATTC 60.308 40.741 0.00 0.00 41.61 2.17
2062 2797 6.485648 GGGTATCATAGGCACGAAGTAAAATT 59.514 38.462 0.00 0.00 41.61 1.82
2063 2798 5.995897 GGGTATCATAGGCACGAAGTAAAAT 59.004 40.000 0.00 0.00 41.61 1.82
2214 4668 4.754322 CAGTTGTTTGGTTAGCTTTGGTT 58.246 39.130 0.00 0.00 0.00 3.67
2215 4669 3.430236 GCAGTTGTTTGGTTAGCTTTGGT 60.430 43.478 0.00 0.00 0.00 3.67
2216 4670 3.123050 GCAGTTGTTTGGTTAGCTTTGG 58.877 45.455 0.00 0.00 0.00 3.28
2217 4671 3.798337 CAGCAGTTGTTTGGTTAGCTTTG 59.202 43.478 0.00 0.00 0.00 2.77
2218 4672 3.737972 GCAGCAGTTGTTTGGTTAGCTTT 60.738 43.478 0.00 0.00 0.00 3.51
2219 4673 2.223805 GCAGCAGTTGTTTGGTTAGCTT 60.224 45.455 0.00 0.00 0.00 3.74
2220 4674 1.338020 GCAGCAGTTGTTTGGTTAGCT 59.662 47.619 0.00 0.00 0.00 3.32
2221 4675 1.066908 TGCAGCAGTTGTTTGGTTAGC 59.933 47.619 0.00 0.00 0.00 3.09
2222 4676 2.859806 GCTGCAGCAGTTGTTTGGTTAG 60.860 50.000 33.36 0.00 41.59 2.34
2223 4677 1.066908 GCTGCAGCAGTTGTTTGGTTA 59.933 47.619 33.36 0.00 41.59 2.85
2409 4864 5.503520 GCACGGGCATTTGTACTAGTAAATC 60.504 44.000 3.77 0.00 40.72 2.17
2410 4865 4.334481 GCACGGGCATTTGTACTAGTAAAT 59.666 41.667 3.77 0.81 40.72 1.40
2414 4869 1.734163 GCACGGGCATTTGTACTAGT 58.266 50.000 3.77 0.00 40.72 2.57
2432 4887 3.565910 TTTTCGCCCGGTGCAATGC 62.566 57.895 14.17 0.00 41.33 3.56
2433 4888 1.006805 TTTTTCGCCCGGTGCAATG 60.007 52.632 14.17 0.01 41.33 2.82
2434 4889 1.175983 TCTTTTTCGCCCGGTGCAAT 61.176 50.000 14.17 0.00 41.33 3.56
2435 4890 1.791103 CTCTTTTTCGCCCGGTGCAA 61.791 55.000 14.17 5.92 41.33 4.08
2436 4891 2.203224 TCTTTTTCGCCCGGTGCA 60.203 55.556 14.17 0.00 41.33 4.57
2437 4892 1.964373 TCTCTTTTTCGCCCGGTGC 60.964 57.895 0.00 2.24 0.00 5.01
2438 4893 0.882927 TGTCTCTTTTTCGCCCGGTG 60.883 55.000 0.00 0.00 0.00 4.94
2439 4894 0.036306 ATGTCTCTTTTTCGCCCGGT 59.964 50.000 0.00 0.00 0.00 5.28
2440 4895 2.018542 TATGTCTCTTTTTCGCCCGG 57.981 50.000 0.00 0.00 0.00 5.73
2441 4896 2.095372 GGTTATGTCTCTTTTTCGCCCG 59.905 50.000 0.00 0.00 0.00 6.13
2442 4897 3.078837 TGGTTATGTCTCTTTTTCGCCC 58.921 45.455 0.00 0.00 0.00 6.13
2443 4898 3.426292 GCTGGTTATGTCTCTTTTTCGCC 60.426 47.826 0.00 0.00 0.00 5.54
2444 4899 3.437049 AGCTGGTTATGTCTCTTTTTCGC 59.563 43.478 0.00 0.00 0.00 4.70
2445 4900 4.093556 GGAGCTGGTTATGTCTCTTTTTCG 59.906 45.833 0.00 0.00 0.00 3.46
2446 4901 5.003804 TGGAGCTGGTTATGTCTCTTTTTC 58.996 41.667 0.00 0.00 0.00 2.29
2447 4902 4.985538 TGGAGCTGGTTATGTCTCTTTTT 58.014 39.130 0.00 0.00 0.00 1.94
2448 4903 4.640771 TGGAGCTGGTTATGTCTCTTTT 57.359 40.909 0.00 0.00 0.00 2.27
2449 4904 4.851639 ATGGAGCTGGTTATGTCTCTTT 57.148 40.909 0.00 0.00 0.00 2.52
2450 4905 6.506538 AATATGGAGCTGGTTATGTCTCTT 57.493 37.500 0.00 0.00 0.00 2.85
2451 4906 6.100279 TGAAATATGGAGCTGGTTATGTCTCT 59.900 38.462 0.00 0.00 0.00 3.10
2452 4907 6.291377 TGAAATATGGAGCTGGTTATGTCTC 58.709 40.000 0.00 0.00 0.00 3.36
2453 4908 6.252599 TGAAATATGGAGCTGGTTATGTCT 57.747 37.500 0.00 0.00 0.00 3.41
2454 4909 7.516198 AATGAAATATGGAGCTGGTTATGTC 57.484 36.000 0.00 0.00 0.00 3.06
2455 4910 7.448469 GGTAATGAAATATGGAGCTGGTTATGT 59.552 37.037 0.00 0.00 0.00 2.29
2456 4911 7.094205 GGGTAATGAAATATGGAGCTGGTTATG 60.094 40.741 0.00 0.00 0.00 1.90
2457 4912 6.948309 GGGTAATGAAATATGGAGCTGGTTAT 59.052 38.462 0.00 0.00 0.00 1.89
2458 4913 6.303839 GGGTAATGAAATATGGAGCTGGTTA 58.696 40.000 0.00 0.00 0.00 2.85
2459 4914 5.140454 GGGTAATGAAATATGGAGCTGGTT 58.860 41.667 0.00 0.00 0.00 3.67
2460 4915 4.729868 GGGTAATGAAATATGGAGCTGGT 58.270 43.478 0.00 0.00 0.00 4.00
2461 4916 3.753272 CGGGTAATGAAATATGGAGCTGG 59.247 47.826 0.00 0.00 0.00 4.85
2462 4917 3.189287 GCGGGTAATGAAATATGGAGCTG 59.811 47.826 0.00 0.00 0.00 4.24
2463 4918 3.181445 TGCGGGTAATGAAATATGGAGCT 60.181 43.478 0.00 0.00 0.00 4.09
2464 4919 3.146066 TGCGGGTAATGAAATATGGAGC 58.854 45.455 0.00 0.00 0.00 4.70
2465 4920 5.766150 TTTGCGGGTAATGAAATATGGAG 57.234 39.130 0.00 0.00 0.00 3.86
2466 4921 6.531503 TTTTTGCGGGTAATGAAATATGGA 57.468 33.333 0.00 0.00 0.00 3.41
2489 4944 6.369615 GTGCACAATGAAATATGGAGCTTTTT 59.630 34.615 13.17 0.00 0.00 1.94
2490 4945 5.870978 GTGCACAATGAAATATGGAGCTTTT 59.129 36.000 13.17 0.00 0.00 2.27
2491 4946 5.186409 AGTGCACAATGAAATATGGAGCTTT 59.814 36.000 21.04 0.00 0.00 3.51
2492 4947 4.708421 AGTGCACAATGAAATATGGAGCTT 59.292 37.500 21.04 0.00 0.00 3.74
2493 4948 4.275810 AGTGCACAATGAAATATGGAGCT 58.724 39.130 21.04 0.00 0.00 4.09
2494 4949 4.644103 AGTGCACAATGAAATATGGAGC 57.356 40.909 21.04 0.00 0.00 4.70
2565 5020 9.474920 CCAAACTTGATTCTACAAAAAGCAATA 57.525 29.630 0.00 0.00 32.22 1.90
2566 5021 8.203485 TCCAAACTTGATTCTACAAAAAGCAAT 58.797 29.630 0.00 0.00 32.22 3.56
2567 5022 7.491048 GTCCAAACTTGATTCTACAAAAAGCAA 59.509 33.333 0.00 0.00 31.79 3.91
2568 5023 6.978080 GTCCAAACTTGATTCTACAAAAAGCA 59.022 34.615 0.00 0.00 0.00 3.91
2569 5024 6.420903 GGTCCAAACTTGATTCTACAAAAAGC 59.579 38.462 0.00 0.00 0.00 3.51
2570 5025 7.649306 CAGGTCCAAACTTGATTCTACAAAAAG 59.351 37.037 0.00 0.00 34.53 2.27
2571 5026 7.340743 TCAGGTCCAAACTTGATTCTACAAAAA 59.659 33.333 0.00 0.00 36.66 1.94
2572 5027 6.831353 TCAGGTCCAAACTTGATTCTACAAAA 59.169 34.615 0.00 0.00 36.66 2.44
2573 5028 6.361433 TCAGGTCCAAACTTGATTCTACAAA 58.639 36.000 0.00 0.00 36.66 2.83
2574 5029 5.935945 TCAGGTCCAAACTTGATTCTACAA 58.064 37.500 0.00 0.00 36.66 2.41
2575 5030 5.560722 TCAGGTCCAAACTTGATTCTACA 57.439 39.130 0.00 0.00 36.66 2.74
2576 5031 6.231211 TCTTCAGGTCCAAACTTGATTCTAC 58.769 40.000 0.00 0.00 40.72 2.59
2577 5032 6.270000 TCTCTTCAGGTCCAAACTTGATTCTA 59.730 38.462 0.00 0.00 40.72 2.10
2578 5033 5.072329 TCTCTTCAGGTCCAAACTTGATTCT 59.928 40.000 0.00 0.00 40.72 2.40
2579 5034 5.180304 GTCTCTTCAGGTCCAAACTTGATTC 59.820 44.000 0.00 0.00 40.72 2.52
2580 5035 5.066593 GTCTCTTCAGGTCCAAACTTGATT 58.933 41.667 0.00 0.00 40.72 2.57
2581 5036 4.505742 GGTCTCTTCAGGTCCAAACTTGAT 60.506 45.833 0.00 0.00 40.72 2.57
2582 5037 3.181454 GGTCTCTTCAGGTCCAAACTTGA 60.181 47.826 0.00 0.00 39.50 3.02
2583 5038 3.142174 GGTCTCTTCAGGTCCAAACTTG 58.858 50.000 0.00 0.00 33.94 3.16
2584 5039 2.777692 TGGTCTCTTCAGGTCCAAACTT 59.222 45.455 0.00 0.00 0.00 2.66
2585 5040 2.408565 TGGTCTCTTCAGGTCCAAACT 58.591 47.619 0.00 0.00 0.00 2.66
2586 5041 2.879026 GTTGGTCTCTTCAGGTCCAAAC 59.121 50.000 0.00 0.00 36.50 2.93
2587 5042 2.777692 AGTTGGTCTCTTCAGGTCCAAA 59.222 45.455 0.00 0.00 36.50 3.28
2588 5043 2.408565 AGTTGGTCTCTTCAGGTCCAA 58.591 47.619 0.00 0.00 34.18 3.53
2589 5044 2.103153 AGTTGGTCTCTTCAGGTCCA 57.897 50.000 0.00 0.00 0.00 4.02
2590 5045 3.617775 GCTAAGTTGGTCTCTTCAGGTCC 60.618 52.174 0.00 0.00 0.00 4.46
2591 5046 3.591023 GCTAAGTTGGTCTCTTCAGGTC 58.409 50.000 0.00 0.00 0.00 3.85
2592 5047 2.028930 CGCTAAGTTGGTCTCTTCAGGT 60.029 50.000 0.00 0.00 0.00 4.00
2593 5048 2.028930 ACGCTAAGTTGGTCTCTTCAGG 60.029 50.000 0.00 0.00 0.00 3.86
2594 5049 3.305398 ACGCTAAGTTGGTCTCTTCAG 57.695 47.619 0.00 0.00 0.00 3.02
2595 5050 3.321111 AGAACGCTAAGTTGGTCTCTTCA 59.679 43.478 0.00 0.00 44.35 3.02
2596 5051 3.915536 AGAACGCTAAGTTGGTCTCTTC 58.084 45.455 0.00 0.00 44.35 2.87
2597 5052 4.308265 GAAGAACGCTAAGTTGGTCTCTT 58.692 43.478 0.00 0.00 44.35 2.85
2598 5053 3.612004 CGAAGAACGCTAAGTTGGTCTCT 60.612 47.826 0.00 0.00 44.35 3.10
2599 5054 2.662156 CGAAGAACGCTAAGTTGGTCTC 59.338 50.000 0.00 0.00 44.35 3.36
2600 5055 2.035576 ACGAAGAACGCTAAGTTGGTCT 59.964 45.455 0.00 0.00 44.35 3.85
2601 5056 2.401351 ACGAAGAACGCTAAGTTGGTC 58.599 47.619 0.00 0.00 44.35 4.02
2602 5057 2.223876 TGACGAAGAACGCTAAGTTGGT 60.224 45.455 0.00 0.00 44.35 3.67
2603 5058 2.400399 TGACGAAGAACGCTAAGTTGG 58.600 47.619 0.00 0.00 44.35 3.77
2604 5059 3.050619 ACTGACGAAGAACGCTAAGTTG 58.949 45.455 0.00 0.00 44.35 3.16
2606 5061 3.050619 CAACTGACGAAGAACGCTAAGT 58.949 45.455 0.00 0.00 46.94 2.24
2607 5062 2.159960 GCAACTGACGAAGAACGCTAAG 60.160 50.000 0.00 0.00 46.94 2.18
2608 5063 1.790623 GCAACTGACGAAGAACGCTAA 59.209 47.619 0.00 0.00 46.94 3.09
2609 5064 1.269361 TGCAACTGACGAAGAACGCTA 60.269 47.619 0.00 0.00 46.94 4.26
2610 5065 0.529773 TGCAACTGACGAAGAACGCT 60.530 50.000 0.00 0.00 46.94 5.07
2611 5066 0.303493 TTGCAACTGACGAAGAACGC 59.697 50.000 0.00 0.00 46.94 4.84
2612 5067 5.697259 GCTCTTGCAACTGACGAAGAACG 62.697 52.174 0.00 0.00 42.71 3.95
2613 5068 2.348966 GCTCTTGCAACTGACGAAGAAC 60.349 50.000 0.00 0.00 39.41 3.01
2614 5069 1.867233 GCTCTTGCAACTGACGAAGAA 59.133 47.619 0.00 0.00 39.41 2.52
2615 5070 1.502231 GCTCTTGCAACTGACGAAGA 58.498 50.000 0.00 0.00 39.41 2.87
2634 5089 3.316029 TGACAAACTTCCATGCAAGACTG 59.684 43.478 2.64 2.40 0.00 3.51
2635 5090 3.554934 TGACAAACTTCCATGCAAGACT 58.445 40.909 2.64 0.00 0.00 3.24
2636 5091 3.988379 TGACAAACTTCCATGCAAGAC 57.012 42.857 2.64 0.00 0.00 3.01
2637 5092 4.320421 CGATTGACAAACTTCCATGCAAGA 60.320 41.667 2.64 0.00 0.00 3.02
2638 5093 3.916172 CGATTGACAAACTTCCATGCAAG 59.084 43.478 0.00 0.00 0.00 4.01
2639 5094 3.317711 ACGATTGACAAACTTCCATGCAA 59.682 39.130 0.00 0.00 0.00 4.08
2640 5095 2.884012 ACGATTGACAAACTTCCATGCA 59.116 40.909 0.00 0.00 0.00 3.96
2641 5096 3.559238 ACGATTGACAAACTTCCATGC 57.441 42.857 0.00 0.00 0.00 4.06
2642 5097 6.826893 AAAAACGATTGACAAACTTCCATG 57.173 33.333 0.00 0.00 0.00 3.66
2667 5122 5.738909 TCATGTTTCCAGAAAAGCCAAAAA 58.261 33.333 0.00 0.00 31.33 1.94
2668 5123 5.350504 TCATGTTTCCAGAAAAGCCAAAA 57.649 34.783 0.00 0.00 31.33 2.44
2669 5124 5.350504 TTCATGTTTCCAGAAAAGCCAAA 57.649 34.783 0.00 0.00 31.33 3.28
2670 5125 5.350504 TTTCATGTTTCCAGAAAAGCCAA 57.649 34.783 0.00 0.00 31.33 4.52
2671 5126 5.350504 TTTTCATGTTTCCAGAAAAGCCA 57.649 34.783 0.00 0.00 36.61 4.75
2672 5127 6.866010 AATTTTCATGTTTCCAGAAAAGCC 57.134 33.333 0.00 0.00 42.42 4.35
2717 5172 9.758651 GAAGTGTTCCAATTTTTATGTAAACCT 57.241 29.630 0.00 0.00 0.00 3.50
2718 5173 9.758651 AGAAGTGTTCCAATTTTTATGTAAACC 57.241 29.630 0.00 0.00 0.00 3.27
2734 5189 9.595357 CGTTTAAGATTCTTAAAGAAGTGTTCC 57.405 33.333 24.96 13.02 37.69 3.62


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

AutoCloner maintained by Alex Coulton.