Multiple sequence alignment - TraesCS6A01G096800

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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 TraesCS6A01G096800 chr6A 100.000 3455 0 0 1 3455 64168558 64165104 0.000000e+00 6381.0
1 TraesCS6A01G096800 chr6A 85.714 343 25 11 446 787 64175350 64175031 1.190000e-89 340.0
2 TraesCS6A01G096800 chr6D 92.589 2982 175 26 361 3324 53176350 53173397 0.000000e+00 4241.0
3 TraesCS6A01G096800 chr6D 93.106 2524 157 11 361 2877 50956016 50958529 0.000000e+00 3681.0
4 TraesCS6A01G096800 chr6D 88.977 2649 225 28 387 2986 51067875 51070505 0.000000e+00 3212.0
5 TraesCS6A01G096800 chr6D 88.463 2687 212 51 363 2986 51342578 51345229 0.000000e+00 3155.0
6 TraesCS6A01G096800 chr6D 87.079 2314 215 39 366 2633 51073698 51075973 0.000000e+00 2540.0
7 TraesCS6A01G096800 chr6D 89.326 356 32 3 2878 3227 50958572 50958927 3.160000e-120 442.0
8 TraesCS6A01G096800 chr6D 87.156 327 27 8 3001 3321 51345353 51345670 1.180000e-94 357.0
9 TraesCS6A01G096800 chr6D 86.239 327 30 8 3001 3321 51070629 51070946 1.190000e-89 340.0
10 TraesCS6A01G096800 chr6D 95.855 193 7 1 2 194 50955832 50956023 9.310000e-81 311.0
11 TraesCS6A01G096800 chr6D 98.065 155 3 0 40 194 53176497 53176343 1.580000e-68 270.0
12 TraesCS6A01G096800 chr6B 93.583 2665 108 28 682 3324 120317474 120314851 0.000000e+00 3916.0
13 TraesCS6A01G096800 chr6B 89.514 2632 202 26 396 2982 120355401 120352799 0.000000e+00 3264.0
14 TraesCS6A01G096800 chr6B 88.693 2326 187 36 366 2642 120595772 120593474 0.000000e+00 2769.0
15 TraesCS6A01G096800 chr6B 84.879 2513 268 61 607 3039 120132997 120130517 0.000000e+00 2433.0
16 TraesCS6A01G096800 chr6B 86.562 320 27 7 3008 3324 120352694 120352388 4.270000e-89 339.0
17 TraesCS6A01G096800 chr6B 94.301 193 10 1 2 194 120355728 120355537 9.380000e-76 294.0
18 TraesCS6A01G096800 chr6B 92.350 183 9 1 501 683 120317734 120317557 4.430000e-64 255.0
19 TraesCS6A01G096800 chr6B 91.860 86 6 1 361 446 120317945 120317861 6.060000e-23 119.0
20 TraesCS6A01G096800 chr6B 90.411 73 6 1 2 74 120133758 120133687 1.020000e-15 95.3
21 TraesCS6A01G096800 chr6B 95.349 43 2 0 361 403 120355544 120355502 6.190000e-08 69.4
22 TraesCS6A01G096800 chr3D 85.158 2722 248 73 376 2971 560025236 560022545 0.000000e+00 2645.0
23 TraesCS6A01G096800 chr1B 86.329 2465 236 48 371 2763 4519346 4516911 0.000000e+00 2591.0
24 TraesCS6A01G096800 chr1B 86.878 2393 215 44 367 2686 4109822 4112188 0.000000e+00 2588.0
25 TraesCS6A01G096800 chr7A 87.376 2313 182 44 372 2619 631984063 631986330 0.000000e+00 2553.0
26 TraesCS6A01G096800 chr7A 95.312 128 6 0 3324 3451 563500611 563500484 1.630000e-48 204.0
27 TraesCS6A01G096800 chr5D 87.386 2299 184 38 446 2657 57819234 57821513 0.000000e+00 2542.0
28 TraesCS6A01G096800 chr5D 85.621 765 78 18 2586 3331 535495198 535494447 0.000000e+00 774.0
29 TraesCS6A01G096800 chr5B 86.424 2394 212 43 599 2895 60826101 60823724 0.000000e+00 2516.0
30 TraesCS6A01G096800 chr7B 85.307 701 60 23 2652 3324 591463530 591464215 0.000000e+00 684.0
31 TraesCS6A01G096800 chr7D 83.215 703 67 25 2652 3324 548235179 548235860 6.380000e-167 597.0
32 TraesCS6A01G096800 chr7D 92.199 141 9 2 3312 3451 471760120 471760259 7.560000e-47 198.0
33 TraesCS6A01G096800 chr7D 97.872 47 1 0 316 362 127279512 127279558 7.950000e-12 82.4
34 TraesCS6A01G096800 chr1D 83.460 659 74 23 2692 3331 49766616 49767258 6.430000e-162 580.0
35 TraesCS6A01G096800 chr1D 93.548 93 5 1 261 352 365792262 365792354 1.670000e-28 137.0
36 TraesCS6A01G096800 chr5A 97.765 179 2 2 186 363 211410607 211410784 1.200000e-79 307.0
37 TraesCS6A01G096800 chr5A 98.225 169 3 0 195 363 211403043 211403211 2.610000e-76 296.0
38 TraesCS6A01G096800 chr5A 94.697 132 6 1 3320 3451 390235314 390235184 1.630000e-48 204.0
39 TraesCS6A01G096800 chr5A 95.918 49 2 0 316 364 578047620 578047572 2.860000e-11 80.5
40 TraesCS6A01G096800 chr2A 97.207 179 3 2 186 363 539950974 539951151 5.600000e-78 302.0
41 TraesCS6A01G096800 chr2A 95.420 131 5 1 3321 3451 196517962 196518091 1.260000e-49 207.0
42 TraesCS6A01G096800 chr2A 95.349 129 6 0 3323 3451 701016692 701016820 4.520000e-49 206.0
43 TraesCS6A01G096800 chr2A 95.312 128 6 0 3324 3451 63805708 63805835 1.630000e-48 204.0
44 TraesCS6A01G096800 chr2A 93.939 132 8 0 3320 3451 728143968 728144099 2.100000e-47 200.0
45 TraesCS6A01G096800 chr2A 82.075 106 14 3 259 362 747308627 747308525 6.140000e-13 86.1
46 TraesCS6A01G096800 chr3A 98.193 166 3 0 195 360 673433594 673433759 1.210000e-74 291.0
47 TraesCS6A01G096800 chrUn 95.349 129 6 0 3323 3451 397099707 397099579 4.520000e-49 206.0
48 TraesCS6A01G096800 chr4A 96.063 127 4 1 3325 3451 269224773 269224648 4.520000e-49 206.0
49 TraesCS6A01G096800 chr2D 78.443 167 35 1 195 360 643471299 643471465 1.310000e-19 108.0


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 TraesCS6A01G096800 chr6A 64165104 64168558 3454 True 6381.000000 6381 100.000000 1 3455 1 chr6A.!!$R1 3454
1 TraesCS6A01G096800 chr6D 53173397 53176497 3100 True 2255.500000 4241 95.327000 40 3324 2 chr6D.!!$R1 3284
2 TraesCS6A01G096800 chr6D 51067875 51075973 8098 False 2030.666667 3212 87.431667 366 3321 3 chr6D.!!$F2 2955
3 TraesCS6A01G096800 chr6D 51342578 51345670 3092 False 1756.000000 3155 87.809500 363 3321 2 chr6D.!!$F3 2958
4 TraesCS6A01G096800 chr6D 50955832 50958927 3095 False 1478.000000 3681 92.762333 2 3227 3 chr6D.!!$F1 3225
5 TraesCS6A01G096800 chr6B 120593474 120595772 2298 True 2769.000000 2769 88.693000 366 2642 1 chr6B.!!$R1 2276
6 TraesCS6A01G096800 chr6B 120314851 120317945 3094 True 1430.000000 3916 92.597667 361 3324 3 chr6B.!!$R3 2963
7 TraesCS6A01G096800 chr6B 120130517 120133758 3241 True 1264.150000 2433 87.645000 2 3039 2 chr6B.!!$R2 3037
8 TraesCS6A01G096800 chr6B 120352388 120355728 3340 True 991.600000 3264 91.431500 2 3324 4 chr6B.!!$R4 3322
9 TraesCS6A01G096800 chr3D 560022545 560025236 2691 True 2645.000000 2645 85.158000 376 2971 1 chr3D.!!$R1 2595
10 TraesCS6A01G096800 chr1B 4516911 4519346 2435 True 2591.000000 2591 86.329000 371 2763 1 chr1B.!!$R1 2392
11 TraesCS6A01G096800 chr1B 4109822 4112188 2366 False 2588.000000 2588 86.878000 367 2686 1 chr1B.!!$F1 2319
12 TraesCS6A01G096800 chr7A 631984063 631986330 2267 False 2553.000000 2553 87.376000 372 2619 1 chr7A.!!$F1 2247
13 TraesCS6A01G096800 chr5D 57819234 57821513 2279 False 2542.000000 2542 87.386000 446 2657 1 chr5D.!!$F1 2211
14 TraesCS6A01G096800 chr5D 535494447 535495198 751 True 774.000000 774 85.621000 2586 3331 1 chr5D.!!$R1 745
15 TraesCS6A01G096800 chr5B 60823724 60826101 2377 True 2516.000000 2516 86.424000 599 2895 1 chr5B.!!$R1 2296
16 TraesCS6A01G096800 chr7B 591463530 591464215 685 False 684.000000 684 85.307000 2652 3324 1 chr7B.!!$F1 672
17 TraesCS6A01G096800 chr7D 548235179 548235860 681 False 597.000000 597 83.215000 2652 3324 1 chr7D.!!$F3 672
18 TraesCS6A01G096800 chr1D 49766616 49767258 642 False 580.000000 580 83.460000 2692 3331 1 chr1D.!!$F1 639

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
225 404 0.033228 TTGAGGCAAATTGTTGGGCG 59.967 50.0 0.0 0.0 35.10 6.13 F
276 455 0.244721 GTGGGCTGATGTTTCAAGGC 59.755 55.0 0.0 0.0 0.00 4.35 F
1907 2627 0.250513 ATCTCACTTTGGCTCGACCC 59.749 55.0 0.0 0.0 37.83 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1903 2623 1.310904 CTAGAGTACCTCTGCGGGTC 58.689 60.000 4.04 0.0 41.37 4.46 R
2207 2927 1.408683 GCATCCCAGCATCAGTTACCA 60.409 52.381 0.00 0.0 0.00 3.25 R
2914 3796 0.970640 TGCCGCCTTTGTACTACAGA 59.029 50.000 0.00 0.0 0.00 3.41 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
31 32 2.345991 GTGCTCAAGGTACCGCCA 59.654 61.111 6.18 0.00 40.61 5.69
37 38 2.750712 GCTCAAGGTACCGCCATTTTTA 59.249 45.455 6.18 0.00 40.61 1.52
38 39 3.191791 GCTCAAGGTACCGCCATTTTTAA 59.808 43.478 6.18 0.00 40.61 1.52
47 48 2.606108 CGCCATTTTTAAGCTTCACCC 58.394 47.619 0.00 0.00 0.00 4.61
94 155 1.588404 CCATTCGACATGTACACGCTC 59.412 52.381 0.00 0.00 0.00 5.03
194 373 5.036117 TGCAAATCCATTCTCCTAGGTAC 57.964 43.478 9.08 0.00 0.00 3.34
195 374 4.473196 TGCAAATCCATTCTCCTAGGTACA 59.527 41.667 9.08 0.00 0.00 2.90
197 376 5.396884 GCAAATCCATTCTCCTAGGTACAGT 60.397 44.000 9.08 0.00 0.00 3.55
198 377 5.878406 AATCCATTCTCCTAGGTACAGTG 57.122 43.478 9.08 3.11 0.00 3.66
199 378 3.643237 TCCATTCTCCTAGGTACAGTGG 58.357 50.000 9.08 11.79 0.00 4.00
200 379 2.103263 CCATTCTCCTAGGTACAGTGGC 59.897 54.545 9.08 0.00 0.00 5.01
201 380 1.471119 TTCTCCTAGGTACAGTGGCG 58.529 55.000 9.08 0.00 0.00 5.69
202 381 0.395311 TCTCCTAGGTACAGTGGCGG 60.395 60.000 9.08 0.00 0.00 6.13
204 383 0.395311 TCCTAGGTACAGTGGCGGAG 60.395 60.000 9.08 0.00 0.00 4.63
218 397 3.708195 CGGAGCTTGAGGCAAATTG 57.292 52.632 0.00 0.00 44.79 2.32
219 398 0.883833 CGGAGCTTGAGGCAAATTGT 59.116 50.000 0.00 0.00 44.79 2.71
220 399 1.270550 CGGAGCTTGAGGCAAATTGTT 59.729 47.619 0.00 0.00 44.79 2.83
221 400 2.680577 GGAGCTTGAGGCAAATTGTTG 58.319 47.619 0.00 0.00 44.79 3.33
222 401 2.611224 GGAGCTTGAGGCAAATTGTTGG 60.611 50.000 0.00 0.00 44.79 3.77
223 402 1.345415 AGCTTGAGGCAAATTGTTGGG 59.655 47.619 0.00 0.00 44.79 4.12
224 403 1.799544 CTTGAGGCAAATTGTTGGGC 58.200 50.000 0.00 0.00 35.10 5.36
225 404 0.033228 TTGAGGCAAATTGTTGGGCG 59.967 50.000 0.00 0.00 35.10 6.13
226 405 1.079888 GAGGCAAATTGTTGGGCGG 60.080 57.895 0.00 0.00 35.10 6.13
227 406 2.047370 GGCAAATTGTTGGGCGGG 60.047 61.111 0.00 0.00 35.10 6.13
228 407 2.741985 GCAAATTGTTGGGCGGGC 60.742 61.111 0.00 0.00 35.10 6.13
229 408 3.059099 CAAATTGTTGGGCGGGCT 58.941 55.556 0.26 0.00 0.00 5.19
230 409 1.374505 CAAATTGTTGGGCGGGCTG 60.375 57.895 0.26 0.00 0.00 4.85
231 410 1.532794 AAATTGTTGGGCGGGCTGA 60.533 52.632 0.00 0.00 0.00 4.26
232 411 0.904394 AAATTGTTGGGCGGGCTGAT 60.904 50.000 0.00 0.00 0.00 2.90
233 412 1.322538 AATTGTTGGGCGGGCTGATC 61.323 55.000 0.00 0.00 0.00 2.92
234 413 4.776322 TGTTGGGCGGGCTGATCG 62.776 66.667 0.00 0.00 0.00 3.69
239 418 4.467084 GGCGGGCTGATCGGACAA 62.467 66.667 10.26 0.00 0.00 3.18
240 419 2.435938 GCGGGCTGATCGGACAAA 60.436 61.111 10.26 0.00 0.00 2.83
241 420 1.819632 GCGGGCTGATCGGACAAAT 60.820 57.895 10.26 0.00 0.00 2.32
242 421 0.531974 GCGGGCTGATCGGACAAATA 60.532 55.000 10.26 0.00 0.00 1.40
243 422 1.502231 CGGGCTGATCGGACAAATAG 58.498 55.000 10.26 0.00 0.00 1.73
244 423 1.068588 CGGGCTGATCGGACAAATAGA 59.931 52.381 10.26 0.00 0.00 1.98
245 424 2.483013 CGGGCTGATCGGACAAATAGAA 60.483 50.000 10.26 0.00 0.00 2.10
246 425 3.744660 GGGCTGATCGGACAAATAGAAT 58.255 45.455 10.26 0.00 0.00 2.40
247 426 4.137543 GGGCTGATCGGACAAATAGAATT 58.862 43.478 10.26 0.00 0.00 2.17
248 427 5.305585 GGGCTGATCGGACAAATAGAATTA 58.694 41.667 10.26 0.00 0.00 1.40
249 428 5.763204 GGGCTGATCGGACAAATAGAATTAA 59.237 40.000 10.26 0.00 0.00 1.40
250 429 6.073003 GGGCTGATCGGACAAATAGAATTAAG 60.073 42.308 10.26 0.00 0.00 1.85
251 430 6.483640 GGCTGATCGGACAAATAGAATTAAGT 59.516 38.462 5.48 0.00 0.00 2.24
252 431 7.656137 GGCTGATCGGACAAATAGAATTAAGTA 59.344 37.037 5.48 0.00 0.00 2.24
253 432 8.704234 GCTGATCGGACAAATAGAATTAAGTAG 58.296 37.037 5.48 0.00 0.00 2.57
254 433 8.589335 TGATCGGACAAATAGAATTAAGTAGC 57.411 34.615 0.00 0.00 0.00 3.58
255 434 7.656137 TGATCGGACAAATAGAATTAAGTAGCC 59.344 37.037 0.00 0.00 0.00 3.93
256 435 7.120923 TCGGACAAATAGAATTAAGTAGCCT 57.879 36.000 0.00 0.00 0.00 4.58
257 436 6.984474 TCGGACAAATAGAATTAAGTAGCCTG 59.016 38.462 0.00 0.00 0.00 4.85
258 437 6.761714 CGGACAAATAGAATTAAGTAGCCTGT 59.238 38.462 0.00 0.00 0.00 4.00
259 438 7.254455 CGGACAAATAGAATTAAGTAGCCTGTG 60.254 40.741 0.00 0.00 0.00 3.66
260 439 7.012421 GGACAAATAGAATTAAGTAGCCTGTGG 59.988 40.741 0.00 0.00 0.00 4.17
261 440 6.828785 ACAAATAGAATTAAGTAGCCTGTGGG 59.171 38.462 0.00 0.00 0.00 4.61
272 451 3.344703 CCTGTGGGCTGATGTTTCA 57.655 52.632 0.00 0.00 0.00 2.69
273 452 1.619654 CCTGTGGGCTGATGTTTCAA 58.380 50.000 0.00 0.00 0.00 2.69
274 453 1.542915 CCTGTGGGCTGATGTTTCAAG 59.457 52.381 0.00 0.00 0.00 3.02
275 454 1.542915 CTGTGGGCTGATGTTTCAAGG 59.457 52.381 0.00 0.00 0.00 3.61
276 455 0.244721 GTGGGCTGATGTTTCAAGGC 59.755 55.000 0.00 0.00 0.00 4.35
277 456 0.899717 TGGGCTGATGTTTCAAGGCC 60.900 55.000 7.50 7.50 40.69 5.19
278 457 0.613012 GGGCTGATGTTTCAAGGCCT 60.613 55.000 0.00 0.00 41.02 5.19
279 458 1.340991 GGGCTGATGTTTCAAGGCCTA 60.341 52.381 5.16 0.00 41.02 3.93
280 459 2.019984 GGCTGATGTTTCAAGGCCTAG 58.980 52.381 5.16 0.00 39.16 3.02
281 460 2.019984 GCTGATGTTTCAAGGCCTAGG 58.980 52.381 5.16 3.67 0.00 3.02
282 461 2.356125 GCTGATGTTTCAAGGCCTAGGA 60.356 50.000 14.75 3.83 0.00 2.94
283 462 3.539604 CTGATGTTTCAAGGCCTAGGAG 58.460 50.000 14.75 0.00 0.00 3.69
284 463 2.912956 TGATGTTTCAAGGCCTAGGAGT 59.087 45.455 14.75 0.00 0.00 3.85
285 464 4.101114 TGATGTTTCAAGGCCTAGGAGTA 58.899 43.478 14.75 0.00 0.00 2.59
286 465 4.534500 TGATGTTTCAAGGCCTAGGAGTAA 59.466 41.667 14.75 0.00 0.00 2.24
287 466 4.986054 TGTTTCAAGGCCTAGGAGTAAA 57.014 40.909 14.75 2.12 0.00 2.01
288 467 5.514500 TGTTTCAAGGCCTAGGAGTAAAT 57.486 39.130 14.75 0.00 0.00 1.40
289 468 5.253330 TGTTTCAAGGCCTAGGAGTAAATG 58.747 41.667 14.75 0.00 0.00 2.32
290 469 5.013704 TGTTTCAAGGCCTAGGAGTAAATGA 59.986 40.000 14.75 0.00 0.00 2.57
291 470 5.772393 TTCAAGGCCTAGGAGTAAATGAA 57.228 39.130 14.75 6.11 0.00 2.57
292 471 5.975988 TCAAGGCCTAGGAGTAAATGAAT 57.024 39.130 14.75 0.00 0.00 2.57
293 472 6.327386 TCAAGGCCTAGGAGTAAATGAATT 57.673 37.500 14.75 0.00 0.00 2.17
294 473 7.446106 TCAAGGCCTAGGAGTAAATGAATTA 57.554 36.000 14.75 0.00 0.00 1.40
295 474 7.509546 TCAAGGCCTAGGAGTAAATGAATTAG 58.490 38.462 14.75 0.00 0.00 1.73
296 475 7.127339 TCAAGGCCTAGGAGTAAATGAATTAGT 59.873 37.037 14.75 0.00 0.00 2.24
297 476 6.831976 AGGCCTAGGAGTAAATGAATTAGTG 58.168 40.000 14.75 0.00 0.00 2.74
298 477 6.387220 AGGCCTAGGAGTAAATGAATTAGTGT 59.613 38.462 14.75 0.00 0.00 3.55
299 478 7.567622 AGGCCTAGGAGTAAATGAATTAGTGTA 59.432 37.037 14.75 0.00 0.00 2.90
300 479 7.656542 GGCCTAGGAGTAAATGAATTAGTGTAC 59.343 40.741 14.75 0.00 0.00 2.90
301 480 8.202137 GCCTAGGAGTAAATGAATTAGTGTACA 58.798 37.037 14.75 0.00 0.00 2.90
317 496 8.864069 TTAGTGTACAAATGTCAAAATGTTGG 57.136 30.769 0.00 0.00 35.29 3.77
318 497 6.279882 AGTGTACAAATGTCAAAATGTTGGG 58.720 36.000 0.00 0.00 35.29 4.12
319 498 5.050431 GTGTACAAATGTCAAAATGTTGGGC 60.050 40.000 0.00 0.00 35.29 5.36
320 499 3.129871 ACAAATGTCAAAATGTTGGGCG 58.870 40.909 0.00 0.00 35.29 6.13
321 500 2.453983 AATGTCAAAATGTTGGGCGG 57.546 45.000 0.00 0.00 35.29 6.13
322 501 0.607620 ATGTCAAAATGTTGGGCGGG 59.392 50.000 0.00 0.00 35.29 6.13
323 502 1.374125 GTCAAAATGTTGGGCGGGC 60.374 57.895 0.00 0.00 35.29 6.13
324 503 2.047370 CAAAATGTTGGGCGGGCC 60.047 61.111 14.65 14.65 0.00 5.80
325 504 2.525381 AAAATGTTGGGCGGGCCA 60.525 55.556 20.63 20.63 37.98 5.36
326 505 2.878089 AAAATGTTGGGCGGGCCAC 61.878 57.895 24.36 17.88 37.98 5.01
362 541 4.400961 GAAGCTCCGCCAGTGCCT 62.401 66.667 0.00 0.00 35.51 4.75
363 542 3.003173 AAGCTCCGCCAGTGCCTA 61.003 61.111 0.00 0.00 35.51 3.93
364 543 2.914777 GAAGCTCCGCCAGTGCCTAG 62.915 65.000 0.00 0.00 35.51 3.02
365 544 4.537433 GCTCCGCCAGTGCCTAGG 62.537 72.222 3.67 3.67 0.00 3.02
366 545 3.077556 CTCCGCCAGTGCCTAGGT 61.078 66.667 11.31 0.00 0.00 3.08
523 919 3.895041 CCCTACTTTCTTTCTTGCCCAAA 59.105 43.478 0.00 0.00 0.00 3.28
561 965 5.500234 ACTAATCTGCATGCTCTGGTTTTA 58.500 37.500 20.33 6.47 0.00 1.52
883 1580 1.135199 TCTTCGTAATGAGTGTCGCCC 60.135 52.381 0.00 0.00 0.00 6.13
1089 1802 6.379703 TGAATTCTCTTTCCCTTGTGTCAAAA 59.620 34.615 7.05 0.00 0.00 2.44
1737 2457 6.428159 GCTGTGAGAGTTTGAAGGATTTAAGA 59.572 38.462 0.00 0.00 0.00 2.10
1843 2563 4.816385 AGTATGTTCATGCCCTAAATGACG 59.184 41.667 0.00 0.00 33.84 4.35
1903 2623 1.446907 AAGCATCTCACTTTGGCTCG 58.553 50.000 0.00 0.00 32.84 5.03
1907 2627 0.250513 ATCTCACTTTGGCTCGACCC 59.749 55.000 0.00 0.00 37.83 4.46
2156 2876 1.123928 GATGACGAGGGGATGAAGGT 58.876 55.000 0.00 0.00 0.00 3.50
2207 2927 5.807520 CACTCGAGCTTATATTGTGTGAAGT 59.192 40.000 13.61 0.00 30.49 3.01
2338 3059 7.161404 ACATGCACATAAGTTAGAGTCTTTGA 58.839 34.615 0.00 0.00 0.00 2.69
2445 3169 3.129988 CCCTGATGAAGGCAATTTGTCTC 59.870 47.826 3.58 0.00 45.89 3.36
2544 3269 0.823356 ATTGGACAAGGCTGTGCGTT 60.823 50.000 0.00 0.00 46.32 4.84
2558 3283 4.051922 CTGTGCGTTATCCAACCTAGATC 58.948 47.826 0.00 0.00 0.00 2.75
2643 3382 6.127338 ACAGTCTAATGATGATCTTTGGACGA 60.127 38.462 22.46 6.20 42.59 4.20
2680 3440 7.909518 TGAAACTTTAATAGTAGGCACCACTA 58.090 34.615 0.00 0.00 35.54 2.74
2739 3524 2.031157 AGCTGTTTTGTAATCCGCACAC 60.031 45.455 0.00 0.00 0.00 3.82
2764 3549 1.276138 GCCCCAAGATTCCCTGTTTTG 59.724 52.381 0.00 0.00 0.00 2.44
2765 3550 1.276138 CCCCAAGATTCCCTGTTTTGC 59.724 52.381 0.00 0.00 0.00 3.68
2766 3551 2.250924 CCCAAGATTCCCTGTTTTGCT 58.749 47.619 0.00 0.00 0.00 3.91
2774 3580 2.183679 TCCCTGTTTTGCTGTTTGGTT 58.816 42.857 0.00 0.00 0.00 3.67
2780 3586 6.458070 CCCTGTTTTGCTGTTTGGTTTTATTG 60.458 38.462 0.00 0.00 0.00 1.90
2856 3686 5.398603 AGACATGTATATCTGCCTGCTAC 57.601 43.478 0.00 0.00 0.00 3.58
2859 3689 4.221703 ACATGTATATCTGCCTGCTACCTC 59.778 45.833 0.00 0.00 0.00 3.85
2872 3702 1.369625 CTACCTCCGTGTGGCAATTC 58.630 55.000 0.00 0.00 34.14 2.17
2914 3796 6.664816 AGTAATGGTCAATGTTTCACATGGAT 59.335 34.615 0.00 0.00 40.40 3.41
2982 3868 1.656095 GGATGTCTTCTCGTTGCTTCG 59.344 52.381 0.00 0.00 0.00 3.79
2999 4011 4.449743 TGCTTCGCAAAAGATAAGTTACGT 59.550 37.500 0.00 0.00 34.76 3.57
3005 4017 6.088483 TCGCAAAAGATAAGTTACGTGTAGTG 59.912 38.462 0.00 0.00 0.00 2.74
3006 4022 6.531439 GCAAAAGATAAGTTACGTGTAGTGG 58.469 40.000 0.00 0.00 0.00 4.00
3028 4055 5.012561 TGGCTAGCACAATTTGGGTTTTTAT 59.987 36.000 18.24 0.00 0.00 1.40
3053 4080 9.872684 ATATTCCAAGATTACAAATGGAGTGAT 57.127 29.630 0.00 0.00 42.55 3.06
3093 4124 2.223377 GGTACAACTGAAACTTGAGCCG 59.777 50.000 0.00 0.00 0.00 5.52
3113 4154 3.555795 CCGCTGAAGGCATATGACATAGT 60.556 47.826 12.11 0.00 41.91 2.12
3132 4173 4.701956 AGTTGTGTGCTAATAACATGCC 57.298 40.909 0.00 0.00 0.00 4.40
3295 4344 2.484264 GCGCACTAAGTTGAAATCTGGT 59.516 45.455 0.30 0.00 0.00 4.00
3328 4378 9.503399 AACTGAACTCTAAAAAGTATTAGGGTG 57.497 33.333 0.66 0.00 44.01 4.61
3329 4379 8.657712 ACTGAACTCTAAAAAGTATTAGGGTGT 58.342 33.333 0.66 0.00 44.01 4.16
3331 4381 8.434392 TGAACTCTAAAAAGTATTAGGGTGTGT 58.566 33.333 0.66 0.00 44.01 3.72
3333 4383 8.203681 ACTCTAAAAAGTATTAGGGTGTGTCT 57.796 34.615 0.00 0.00 43.33 3.41
3334 4384 9.317827 ACTCTAAAAAGTATTAGGGTGTGTCTA 57.682 33.333 0.00 0.00 43.33 2.59
3336 4386 8.755977 TCTAAAAAGTATTAGGGTGTGTCTAGG 58.244 37.037 0.00 0.00 34.36 3.02
3337 4387 5.952347 AAAGTATTAGGGTGTGTCTAGGG 57.048 43.478 0.00 0.00 0.00 3.53
3338 4388 3.306613 AGTATTAGGGTGTGTCTAGGGC 58.693 50.000 0.00 0.00 0.00 5.19
3339 4389 2.263895 ATTAGGGTGTGTCTAGGGCA 57.736 50.000 0.00 0.00 0.00 5.36
3340 4390 1.272807 TTAGGGTGTGTCTAGGGCAC 58.727 55.000 10.20 10.20 37.37 5.01
3341 4391 0.115547 TAGGGTGTGTCTAGGGCACA 59.884 55.000 14.22 14.22 43.60 4.57
3342 4392 0.547712 AGGGTGTGTCTAGGGCACAT 60.548 55.000 18.92 5.97 46.66 3.21
3343 4393 0.107654 GGGTGTGTCTAGGGCACATC 60.108 60.000 18.92 18.25 46.66 3.06
3344 4394 0.905357 GGTGTGTCTAGGGCACATCT 59.095 55.000 18.92 0.00 46.66 2.90
3345 4395 2.108168 GGTGTGTCTAGGGCACATCTA 58.892 52.381 18.92 0.21 46.66 1.98
3385 8752 8.969260 ATTGCATATCTAAGTGAGTGAATCAA 57.031 30.769 0.00 0.00 40.43 2.57
3386 8753 8.429493 TTGCATATCTAAGTGAGTGAATCAAG 57.571 34.615 0.00 0.00 40.43 3.02
3387 8754 6.481313 TGCATATCTAAGTGAGTGAATCAAGC 59.519 38.462 0.00 0.00 40.43 4.01
3388 8755 6.481313 GCATATCTAAGTGAGTGAATCAAGCA 59.519 38.462 0.00 0.00 40.43 3.91
3390 8757 9.702494 CATATCTAAGTGAGTGAATCAAGCATA 57.298 33.333 0.00 0.00 40.43 3.14
3393 8760 8.484641 TCTAAGTGAGTGAATCAAGCATAAAG 57.515 34.615 0.00 0.00 40.43 1.85
3394 8761 8.314021 TCTAAGTGAGTGAATCAAGCATAAAGA 58.686 33.333 0.00 0.00 40.43 2.52
3395 8762 6.981762 AGTGAGTGAATCAAGCATAAAGAG 57.018 37.500 0.00 0.00 40.43 2.85
3396 8763 6.705302 AGTGAGTGAATCAAGCATAAAGAGA 58.295 36.000 0.00 0.00 40.43 3.10
3397 8764 7.164122 AGTGAGTGAATCAAGCATAAAGAGAA 58.836 34.615 0.00 0.00 40.43 2.87
3398 8765 7.663081 AGTGAGTGAATCAAGCATAAAGAGAAA 59.337 33.333 0.00 0.00 40.43 2.52
3399 8766 8.292448 GTGAGTGAATCAAGCATAAAGAGAAAA 58.708 33.333 0.00 0.00 40.43 2.29
3400 8767 8.849168 TGAGTGAATCAAGCATAAAGAGAAAAA 58.151 29.630 0.00 0.00 34.02 1.94
3401 8768 9.339492 GAGTGAATCAAGCATAAAGAGAAAAAG 57.661 33.333 0.00 0.00 0.00 2.27
3403 8770 9.683069 GTGAATCAAGCATAAAGAGAAAAAGAA 57.317 29.630 0.00 0.00 0.00 2.52
3439 8806 9.430399 AGAAAATATTCCCATGAATCTCAATGT 57.570 29.630 0.00 0.00 41.44 2.71
3445 8812 8.632906 ATTCCCATGAATCTCAATGTAAGATC 57.367 34.615 0.00 0.00 36.45 2.75
3446 8813 7.140522 TCCCATGAATCTCAATGTAAGATCA 57.859 36.000 0.00 0.00 32.29 2.92
3447 8814 7.576403 TCCCATGAATCTCAATGTAAGATCAA 58.424 34.615 0.00 0.00 32.29 2.57
3448 8815 8.222637 TCCCATGAATCTCAATGTAAGATCAAT 58.777 33.333 0.00 0.00 32.29 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.971125 GCACGGCCGGGAGATAGC 62.971 72.222 36.21 17.80 0.00 2.97
31 32 2.823747 GGGTCGGGTGAAGCTTAAAAAT 59.176 45.455 0.00 0.00 0.00 1.82
37 38 2.529389 AGGGGTCGGGTGAAGCTT 60.529 61.111 0.00 0.00 0.00 3.74
38 39 3.003763 GAGGGGTCGGGTGAAGCT 61.004 66.667 0.00 0.00 0.00 3.74
47 48 3.771160 CGAACAGGGGAGGGGTCG 61.771 72.222 0.00 0.00 0.00 4.79
194 373 2.435586 CCTCAAGCTCCGCCACTG 60.436 66.667 0.00 0.00 0.00 3.66
195 374 4.400961 GCCTCAAGCTCCGCCACT 62.401 66.667 0.00 0.00 38.99 4.00
197 376 2.769652 ATTTGCCTCAAGCTCCGCCA 62.770 55.000 0.00 0.00 44.23 5.69
198 377 1.598701 AATTTGCCTCAAGCTCCGCC 61.599 55.000 0.00 0.00 44.23 6.13
199 378 0.457337 CAATTTGCCTCAAGCTCCGC 60.457 55.000 0.00 0.00 44.23 5.54
200 379 0.883833 ACAATTTGCCTCAAGCTCCG 59.116 50.000 0.00 0.00 44.23 4.63
201 380 2.611224 CCAACAATTTGCCTCAAGCTCC 60.611 50.000 0.00 0.00 44.23 4.70
202 381 2.611224 CCCAACAATTTGCCTCAAGCTC 60.611 50.000 0.00 0.00 44.23 4.09
204 383 1.799544 CCCAACAATTTGCCTCAAGC 58.200 50.000 0.00 0.00 44.14 4.01
205 384 1.799544 GCCCAACAATTTGCCTCAAG 58.200 50.000 0.00 0.00 0.00 3.02
206 385 0.033228 CGCCCAACAATTTGCCTCAA 59.967 50.000 0.00 0.00 0.00 3.02
207 386 1.664873 CGCCCAACAATTTGCCTCA 59.335 52.632 0.00 0.00 0.00 3.86
209 388 2.582493 CCCGCCCAACAATTTGCCT 61.582 57.895 0.00 0.00 0.00 4.75
210 389 2.047370 CCCGCCCAACAATTTGCC 60.047 61.111 0.00 0.00 0.00 4.52
211 390 2.741985 GCCCGCCCAACAATTTGC 60.742 61.111 0.00 0.00 0.00 3.68
212 391 1.374505 CAGCCCGCCCAACAATTTG 60.375 57.895 0.00 0.00 0.00 2.32
213 392 0.904394 ATCAGCCCGCCCAACAATTT 60.904 50.000 0.00 0.00 0.00 1.82
214 393 1.305213 ATCAGCCCGCCCAACAATT 60.305 52.632 0.00 0.00 0.00 2.32
215 394 1.754234 GATCAGCCCGCCCAACAAT 60.754 57.895 0.00 0.00 0.00 2.71
216 395 2.361104 GATCAGCCCGCCCAACAA 60.361 61.111 0.00 0.00 0.00 2.83
217 396 4.776322 CGATCAGCCCGCCCAACA 62.776 66.667 0.00 0.00 0.00 3.33
222 401 3.840102 TATTTGTCCGATCAGCCCGCC 62.840 57.143 0.00 0.00 0.00 6.13
223 402 0.531974 TATTTGTCCGATCAGCCCGC 60.532 55.000 0.00 0.00 0.00 6.13
224 403 1.068588 TCTATTTGTCCGATCAGCCCG 59.931 52.381 0.00 0.00 0.00 6.13
225 404 2.910688 TCTATTTGTCCGATCAGCCC 57.089 50.000 0.00 0.00 0.00 5.19
226 405 6.483640 ACTTAATTCTATTTGTCCGATCAGCC 59.516 38.462 0.00 0.00 0.00 4.85
227 406 7.484035 ACTTAATTCTATTTGTCCGATCAGC 57.516 36.000 0.00 0.00 0.00 4.26
228 407 8.704234 GCTACTTAATTCTATTTGTCCGATCAG 58.296 37.037 0.00 0.00 0.00 2.90
229 408 7.656137 GGCTACTTAATTCTATTTGTCCGATCA 59.344 37.037 0.00 0.00 0.00 2.92
230 409 7.873505 AGGCTACTTAATTCTATTTGTCCGATC 59.126 37.037 0.00 0.00 0.00 3.69
231 410 7.657761 CAGGCTACTTAATTCTATTTGTCCGAT 59.342 37.037 0.00 0.00 0.00 4.18
232 411 6.984474 CAGGCTACTTAATTCTATTTGTCCGA 59.016 38.462 0.00 0.00 0.00 4.55
233 412 6.761714 ACAGGCTACTTAATTCTATTTGTCCG 59.238 38.462 0.00 0.00 0.00 4.79
234 413 7.012421 CCACAGGCTACTTAATTCTATTTGTCC 59.988 40.741 0.00 0.00 0.00 4.02
235 414 7.012421 CCCACAGGCTACTTAATTCTATTTGTC 59.988 40.741 0.00 0.00 0.00 3.18
236 415 6.828785 CCCACAGGCTACTTAATTCTATTTGT 59.171 38.462 0.00 0.00 0.00 2.83
237 416 7.264373 CCCACAGGCTACTTAATTCTATTTG 57.736 40.000 0.00 0.00 0.00 2.32
254 433 1.542915 CTTGAAACATCAGCCCACAGG 59.457 52.381 0.00 0.00 0.00 4.00
255 434 1.542915 CCTTGAAACATCAGCCCACAG 59.457 52.381 0.00 0.00 0.00 3.66
256 435 1.619654 CCTTGAAACATCAGCCCACA 58.380 50.000 0.00 0.00 0.00 4.17
257 436 0.244721 GCCTTGAAACATCAGCCCAC 59.755 55.000 0.00 0.00 0.00 4.61
258 437 0.899717 GGCCTTGAAACATCAGCCCA 60.900 55.000 0.00 0.00 34.23 5.36
259 438 0.613012 AGGCCTTGAAACATCAGCCC 60.613 55.000 0.00 0.00 41.42 5.19
260 439 2.019984 CTAGGCCTTGAAACATCAGCC 58.980 52.381 12.58 0.00 40.79 4.85
261 440 2.019984 CCTAGGCCTTGAAACATCAGC 58.980 52.381 12.58 0.00 0.00 4.26
262 441 3.054802 ACTCCTAGGCCTTGAAACATCAG 60.055 47.826 12.58 0.00 0.00 2.90
263 442 2.912956 ACTCCTAGGCCTTGAAACATCA 59.087 45.455 12.58 0.00 0.00 3.07
264 443 3.636153 ACTCCTAGGCCTTGAAACATC 57.364 47.619 12.58 0.00 0.00 3.06
265 444 5.514500 TTTACTCCTAGGCCTTGAAACAT 57.486 39.130 12.58 0.00 0.00 2.71
266 445 4.986054 TTTACTCCTAGGCCTTGAAACA 57.014 40.909 12.58 0.00 0.00 2.83
267 446 5.497474 TCATTTACTCCTAGGCCTTGAAAC 58.503 41.667 12.58 0.00 0.00 2.78
268 447 5.772393 TCATTTACTCCTAGGCCTTGAAA 57.228 39.130 12.58 5.87 0.00 2.69
269 448 5.772393 TTCATTTACTCCTAGGCCTTGAA 57.228 39.130 12.58 8.78 0.00 2.69
270 449 5.975988 ATTCATTTACTCCTAGGCCTTGA 57.024 39.130 12.58 7.64 0.00 3.02
271 450 7.227512 CACTAATTCATTTACTCCTAGGCCTTG 59.772 40.741 12.58 9.54 0.00 3.61
272 451 7.092399 ACACTAATTCATTTACTCCTAGGCCTT 60.092 37.037 12.58 0.00 0.00 4.35
273 452 6.387220 ACACTAATTCATTTACTCCTAGGCCT 59.613 38.462 11.78 11.78 0.00 5.19
274 453 6.592870 ACACTAATTCATTTACTCCTAGGCC 58.407 40.000 2.96 0.00 0.00 5.19
275 454 8.202137 TGTACACTAATTCATTTACTCCTAGGC 58.798 37.037 2.96 0.00 0.00 3.93
291 470 9.474920 CCAACATTTTGACATTTGTACACTAAT 57.525 29.630 0.00 0.00 34.24 1.73
292 471 7.923344 CCCAACATTTTGACATTTGTACACTAA 59.077 33.333 0.00 0.00 34.24 2.24
293 472 7.429633 CCCAACATTTTGACATTTGTACACTA 58.570 34.615 0.00 0.00 34.24 2.74
294 473 6.279882 CCCAACATTTTGACATTTGTACACT 58.720 36.000 0.00 0.00 34.24 3.55
295 474 5.050431 GCCCAACATTTTGACATTTGTACAC 60.050 40.000 0.00 0.00 34.24 2.90
296 475 5.053145 GCCCAACATTTTGACATTTGTACA 58.947 37.500 0.00 0.00 34.24 2.90
297 476 4.149747 CGCCCAACATTTTGACATTTGTAC 59.850 41.667 0.00 0.00 34.24 2.90
298 477 4.302455 CGCCCAACATTTTGACATTTGTA 58.698 39.130 0.00 0.00 34.24 2.41
299 478 3.129871 CGCCCAACATTTTGACATTTGT 58.870 40.909 0.00 0.00 34.24 2.83
300 479 2.479656 CCGCCCAACATTTTGACATTTG 59.520 45.455 0.00 0.00 34.24 2.32
301 480 2.549778 CCCGCCCAACATTTTGACATTT 60.550 45.455 0.00 0.00 34.24 2.32
302 481 1.001860 CCCGCCCAACATTTTGACATT 59.998 47.619 0.00 0.00 34.24 2.71
303 482 0.607620 CCCGCCCAACATTTTGACAT 59.392 50.000 0.00 0.00 34.24 3.06
304 483 2.045280 CCCGCCCAACATTTTGACA 58.955 52.632 0.00 0.00 34.24 3.58
305 484 1.374125 GCCCGCCCAACATTTTGAC 60.374 57.895 0.00 0.00 34.24 3.18
306 485 2.578714 GGCCCGCCCAACATTTTGA 61.579 57.895 0.00 0.00 34.24 2.69
307 486 2.047370 GGCCCGCCCAACATTTTG 60.047 61.111 0.00 0.00 0.00 2.44
308 487 2.525381 TGGCCCGCCCAACATTTT 60.525 55.556 0.00 0.00 41.82 1.82
349 528 1.739338 CTACCTAGGCACTGGCGGAG 61.739 65.000 9.30 0.00 41.52 4.63
350 529 1.756950 CTACCTAGGCACTGGCGGA 60.757 63.158 9.30 0.00 41.52 5.54
351 530 2.797278 CCTACCTAGGCACTGGCGG 61.797 68.421 9.30 0.00 41.52 6.13
352 531 1.739338 CTCCTACCTAGGCACTGGCG 61.739 65.000 9.30 0.00 43.31 5.69
353 532 0.688087 ACTCCTACCTAGGCACTGGC 60.688 60.000 9.30 0.00 43.31 4.85
354 533 2.175069 TCTACTCCTACCTAGGCACTGG 59.825 54.545 9.30 6.15 43.31 4.00
355 534 3.579534 TCTACTCCTACCTAGGCACTG 57.420 52.381 9.30 0.00 43.31 3.66
356 535 4.604784 TTTCTACTCCTACCTAGGCACT 57.395 45.455 9.30 0.00 43.31 4.40
357 536 5.873146 ATTTTCTACTCCTACCTAGGCAC 57.127 43.478 9.30 0.00 43.31 5.01
358 537 6.041751 GCTTATTTTCTACTCCTACCTAGGCA 59.958 42.308 9.30 0.00 43.31 4.75
359 538 6.268158 AGCTTATTTTCTACTCCTACCTAGGC 59.732 42.308 9.30 0.00 43.31 3.93
360 539 7.842887 AGCTTATTTTCTACTCCTACCTAGG 57.157 40.000 7.41 7.41 45.02 3.02
363 542 9.232473 CAAAAAGCTTATTTTCTACTCCTACCT 57.768 33.333 0.00 0.00 30.31 3.08
364 543 7.968956 GCAAAAAGCTTATTTTCTACTCCTACC 59.031 37.037 0.00 0.00 41.15 3.18
365 544 8.512138 TGCAAAAAGCTTATTTTCTACTCCTAC 58.488 33.333 0.00 0.00 45.94 3.18
366 545 8.630054 TGCAAAAAGCTTATTTTCTACTCCTA 57.370 30.769 0.00 0.00 45.94 2.94
523 919 7.386851 TGCAGATTAGTACTTTTAGCTCTTGT 58.613 34.615 0.00 0.00 0.00 3.16
533 929 5.121811 CCAGAGCATGCAGATTAGTACTTT 58.878 41.667 21.98 0.00 0.00 2.66
575 989 1.668826 TGGAGTGGAGGCACCTAATT 58.331 50.000 1.84 0.00 39.86 1.40
576 990 1.668826 TTGGAGTGGAGGCACCTAAT 58.331 50.000 1.84 0.00 39.86 1.73
577 991 1.440618 TTTGGAGTGGAGGCACCTAA 58.559 50.000 1.84 0.00 39.86 2.69
578 992 1.668826 ATTTGGAGTGGAGGCACCTA 58.331 50.000 1.84 0.00 39.86 3.08
883 1580 4.035324 GCATGTGAAGATGGAGATGACAAG 59.965 45.833 0.00 0.00 0.00 3.16
1089 1802 3.205507 TCCCCTCTATCTTGTAGAGCTGT 59.794 47.826 0.00 0.00 39.66 4.40
1737 2457 4.119136 GCCAAGTTTTAATATGCGCCAAT 58.881 39.130 4.18 0.00 0.00 3.16
1843 2563 5.640783 TCCGAGATAATGCAATCATGTCATC 59.359 40.000 0.00 0.00 32.23 2.92
1903 2623 1.310904 CTAGAGTACCTCTGCGGGTC 58.689 60.000 4.04 0.00 41.37 4.46
1907 2627 4.998033 TGATATCACTAGAGTACCTCTGCG 59.002 45.833 0.00 0.00 41.37 5.18
2156 2876 2.023015 AGGTATGGTGAGGATGACAGGA 60.023 50.000 0.00 0.00 0.00 3.86
2207 2927 1.408683 GCATCCCAGCATCAGTTACCA 60.409 52.381 0.00 0.00 0.00 3.25
2338 3059 8.915036 AGAGACCTTACTACAACAATCGATAAT 58.085 33.333 0.00 0.00 0.00 1.28
2440 3161 1.753078 ATCACTAGGCGCCGAGACA 60.753 57.895 38.60 25.03 0.00 3.41
2445 3169 1.141881 ACTTCATCACTAGGCGCCG 59.858 57.895 23.20 10.77 0.00 6.46
2544 3269 5.363868 CAGACAAGTGGATCTAGGTTGGATA 59.636 44.000 6.18 0.00 0.00 2.59
2558 3283 4.154918 GCAATAGAAAGTCCAGACAAGTGG 59.845 45.833 0.00 0.00 39.19 4.00
2643 3382 9.520515 ACTATTAAAGTTTCATTCACCAGATGT 57.479 29.630 0.00 0.00 33.35 3.06
2680 3440 8.615878 TTATGCAACAAGAATTACAGTACACT 57.384 30.769 0.00 0.00 0.00 3.55
2739 3524 1.529244 GGGAATCTTGGGGCCGATG 60.529 63.158 0.00 0.00 0.00 3.84
2764 3549 8.515414 AGAGTAGAATCAATAAAACCAAACAGC 58.485 33.333 0.00 0.00 0.00 4.40
2766 3551 9.793259 AGAGAGTAGAATCAATAAAACCAAACA 57.207 29.630 0.00 0.00 0.00 2.83
2780 3586 8.898761 TCACAACATCTCTTAGAGAGTAGAATC 58.101 37.037 17.39 0.00 42.26 2.52
2797 3608 6.368213 CGTAGTAAAAAGGGTTCACAACATC 58.632 40.000 0.00 0.00 0.00 3.06
2856 3686 1.308069 CCAGAATTGCCACACGGAGG 61.308 60.000 0.00 0.00 0.00 4.30
2859 3689 1.401552 CATACCAGAATTGCCACACGG 59.598 52.381 0.00 0.00 0.00 4.94
2872 3702 6.042093 ACCATTACTACACTGATCCATACCAG 59.958 42.308 0.00 0.00 36.53 4.00
2914 3796 0.970640 TGCCGCCTTTGTACTACAGA 59.029 50.000 0.00 0.00 0.00 3.41
2960 3845 0.976641 AGCAACGAGAAGACATCCCA 59.023 50.000 0.00 0.00 0.00 4.37
2982 3868 6.531439 CCACTACACGTAACTTATCTTTTGC 58.469 40.000 0.00 0.00 0.00 3.68
2999 4011 3.081061 CCAAATTGTGCTAGCCACTACA 58.919 45.455 13.29 6.91 44.92 2.74
3005 4017 3.401033 AAAACCCAAATTGTGCTAGCC 57.599 42.857 13.29 4.15 0.00 3.93
3006 4022 8.716646 AATATAAAAACCCAAATTGTGCTAGC 57.283 30.769 8.10 8.10 0.00 3.42
3028 4055 9.699410 AATCACTCCATTTGTAATCTTGGAATA 57.301 29.630 0.00 0.00 37.78 1.75
3047 4074 6.111382 TCAACTTCCATGAGATGAATCACTC 58.889 40.000 0.00 6.08 30.46 3.51
3052 4079 5.447778 ACCTCAACTTCCATGAGATGAAT 57.552 39.130 5.16 0.00 45.74 2.57
3053 4080 4.916041 ACCTCAACTTCCATGAGATGAA 57.084 40.909 5.16 0.00 45.74 2.57
3093 4124 4.818546 ACAACTATGTCATATGCCTTCAGC 59.181 41.667 0.00 0.00 37.28 4.26
3113 4154 3.694072 GGAGGCATGTTATTAGCACACAA 59.306 43.478 0.00 0.00 0.00 3.33
3132 4173 3.523564 TGACCCCCTCTAAATTTCTGGAG 59.476 47.826 0.00 1.63 0.00 3.86
3328 4378 4.250116 CATCTAGATGTGCCCTAGACAC 57.750 50.000 22.42 8.47 43.57 3.67
3362 8729 6.481313 GCTTGATTCACTCACTTAGATATGCA 59.519 38.462 0.00 0.00 32.17 3.96
3363 8730 6.481313 TGCTTGATTCACTCACTTAGATATGC 59.519 38.462 0.00 0.00 32.17 3.14
3367 8734 9.107177 CTTTATGCTTGATTCACTCACTTAGAT 57.893 33.333 0.00 0.00 32.17 1.98
3368 8735 8.314021 TCTTTATGCTTGATTCACTCACTTAGA 58.686 33.333 0.00 0.00 32.17 2.10
3369 8736 8.484641 TCTTTATGCTTGATTCACTCACTTAG 57.515 34.615 0.00 0.00 32.17 2.18
3371 8738 7.164122 TCTCTTTATGCTTGATTCACTCACTT 58.836 34.615 0.00 0.00 32.17 3.16
3373 8740 6.974932 TCTCTTTATGCTTGATTCACTCAC 57.025 37.500 0.00 0.00 32.17 3.51
3374 8741 7.984422 TTTCTCTTTATGCTTGATTCACTCA 57.016 32.000 0.00 0.00 0.00 3.41
3375 8742 9.339492 CTTTTTCTCTTTATGCTTGATTCACTC 57.661 33.333 0.00 0.00 0.00 3.51
3376 8743 9.071276 TCTTTTTCTCTTTATGCTTGATTCACT 57.929 29.630 0.00 0.00 0.00 3.41
3377 8744 9.683069 TTCTTTTTCTCTTTATGCTTGATTCAC 57.317 29.630 0.00 0.00 0.00 3.18
3413 8780 9.430399 ACATTGAGATTCATGGGAATATTTTCT 57.570 29.630 0.00 0.00 43.69 2.52
3420 8787 8.222637 TGATCTTACATTGAGATTCATGGGAAT 58.777 33.333 0.00 0.00 46.27 3.01
3422 8789 7.140522 TGATCTTACATTGAGATTCATGGGA 57.859 36.000 0.00 0.00 34.13 4.37
3424 8791 9.063615 TCATTGATCTTACATTGAGATTCATGG 57.936 33.333 0.00 0.00 34.13 3.66


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

AutoCloner maintained by Alex Coulton.