Multiple sequence alignment - TraesCS2B01G587300

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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 TraesCS2B01G587300 chr2B 100.000 2550 0 0 1 2550 774564883 774567432 0.000000e+00 4710
1 TraesCS2B01G587300 chr2B 89.783 646 28 8 1935 2550 596963598 596964235 0.000000e+00 793
2 TraesCS2B01G587300 chr2B 88.043 276 18 5 1 261 774491941 774492216 1.900000e-81 313
3 TraesCS2B01G587300 chr2B 84.452 283 13 14 297 548 774492495 774492777 1.510000e-62 250
4 TraesCS2B01G587300 chr2D 93.120 2035 83 22 554 2550 64508694 64510709 0.000000e+00 2929
5 TraesCS2B01G587300 chr2D 90.868 438 27 10 2122 2550 218366382 218366815 2.200000e-160 575
6 TraesCS2B01G587300 chr5B 93.192 2027 80 10 555 2550 88388562 88390561 0.000000e+00 2926
7 TraesCS2B01G587300 chr5B 91.852 2025 98 27 556 2550 680910065 680908078 0.000000e+00 2763
8 TraesCS2B01G587300 chr5B 92.884 1574 79 13 553 2121 317969010 317970555 0.000000e+00 2255
9 TraesCS2B01G587300 chr6B 92.903 2015 99 9 559 2550 667350403 667348410 0.000000e+00 2889
10 TraesCS2B01G587300 chr6B 93.001 1786 81 13 798 2550 709811310 709809536 0.000000e+00 2566
11 TraesCS2B01G587300 chrUn 92.625 2034 92 20 557 2550 60558711 60560726 0.000000e+00 2872
12 TraesCS2B01G587300 chr1B 92.418 2031 100 21 556 2550 542264939 542266951 0.000000e+00 2848
13 TraesCS2B01G587300 chr1B 89.922 645 29 6 1935 2550 663788022 663788659 0.000000e+00 798
14 TraesCS2B01G587300 chr1B 89.335 647 30 17 1935 2550 232742258 232742896 0.000000e+00 776
15 TraesCS2B01G587300 chr3B 92.270 2031 99 10 554 2550 804661029 804663035 0.000000e+00 2828
16 TraesCS2B01G587300 chr3B 93.507 1571 92 5 555 2120 673607421 673605856 0.000000e+00 2327
17 TraesCS2B01G587300 chr3B 90.380 395 20 3 553 944 13424067 13424446 1.050000e-138 503
18 TraesCS2B01G587300 chr4B 92.239 2010 98 12 557 2531 645967796 645965810 0.000000e+00 2795
19 TraesCS2B01G587300 chr4B 88.432 389 27 4 555 940 534922953 534922580 1.080000e-123 453
20 TraesCS2B01G587300 chr4A 94.013 1570 72 7 557 2121 705529252 705527700 0.000000e+00 2359
21 TraesCS2B01G587300 chr4A 89.619 867 50 12 1719 2550 724523396 724522535 0.000000e+00 1066
22 TraesCS2B01G587300 chr4A 89.216 408 27 4 537 942 738255662 738256054 6.340000e-136 494
23 TraesCS2B01G587300 chr6D 88.898 1162 102 15 557 1712 62797697 62796557 0.000000e+00 1406
24 TraesCS2B01G587300 chr3A 89.139 488 32 11 2067 2550 102545538 102545068 2.830000e-164 588
25 TraesCS2B01G587300 chr3A 88.813 438 36 10 2122 2550 706124072 706123639 2.250000e-145 525
26 TraesCS2B01G587300 chr2A 86.022 279 13 9 1 254 760374831 760375108 2.500000e-70 276
27 TraesCS2B01G587300 chr2A 85.921 277 14 3 297 548 760375875 760376151 3.230000e-69 272


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 TraesCS2B01G587300 chr2B 774564883 774567432 2549 False 4710.0 4710 100.0000 1 2550 1 chr2B.!!$F2 2549
1 TraesCS2B01G587300 chr2B 596963598 596964235 637 False 793.0 793 89.7830 1935 2550 1 chr2B.!!$F1 615
2 TraesCS2B01G587300 chr2B 774491941 774492777 836 False 281.5 313 86.2475 1 548 2 chr2B.!!$F3 547
3 TraesCS2B01G587300 chr2D 64508694 64510709 2015 False 2929.0 2929 93.1200 554 2550 1 chr2D.!!$F1 1996
4 TraesCS2B01G587300 chr5B 88388562 88390561 1999 False 2926.0 2926 93.1920 555 2550 1 chr5B.!!$F1 1995
5 TraesCS2B01G587300 chr5B 680908078 680910065 1987 True 2763.0 2763 91.8520 556 2550 1 chr5B.!!$R1 1994
6 TraesCS2B01G587300 chr5B 317969010 317970555 1545 False 2255.0 2255 92.8840 553 2121 1 chr5B.!!$F2 1568
7 TraesCS2B01G587300 chr6B 667348410 667350403 1993 True 2889.0 2889 92.9030 559 2550 1 chr6B.!!$R1 1991
8 TraesCS2B01G587300 chr6B 709809536 709811310 1774 True 2566.0 2566 93.0010 798 2550 1 chr6B.!!$R2 1752
9 TraesCS2B01G587300 chrUn 60558711 60560726 2015 False 2872.0 2872 92.6250 557 2550 1 chrUn.!!$F1 1993
10 TraesCS2B01G587300 chr1B 542264939 542266951 2012 False 2848.0 2848 92.4180 556 2550 1 chr1B.!!$F2 1994
11 TraesCS2B01G587300 chr1B 663788022 663788659 637 False 798.0 798 89.9220 1935 2550 1 chr1B.!!$F3 615
12 TraesCS2B01G587300 chr1B 232742258 232742896 638 False 776.0 776 89.3350 1935 2550 1 chr1B.!!$F1 615
13 TraesCS2B01G587300 chr3B 804661029 804663035 2006 False 2828.0 2828 92.2700 554 2550 1 chr3B.!!$F2 1996
14 TraesCS2B01G587300 chr3B 673605856 673607421 1565 True 2327.0 2327 93.5070 555 2120 1 chr3B.!!$R1 1565
15 TraesCS2B01G587300 chr4B 645965810 645967796 1986 True 2795.0 2795 92.2390 557 2531 1 chr4B.!!$R2 1974
16 TraesCS2B01G587300 chr4A 705527700 705529252 1552 True 2359.0 2359 94.0130 557 2121 1 chr4A.!!$R1 1564
17 TraesCS2B01G587300 chr4A 724522535 724523396 861 True 1066.0 1066 89.6190 1719 2550 1 chr4A.!!$R2 831
18 TraesCS2B01G587300 chr6D 62796557 62797697 1140 True 1406.0 1406 88.8980 557 1712 1 chr6D.!!$R1 1155
19 TraesCS2B01G587300 chr2A 760374831 760376151 1320 False 274.0 276 85.9715 1 548 2 chr2A.!!$F1 547

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
269 295 0.037590 CCTCGGGGGTTGATGTCAAA 59.962 55.0 0.00 0.0 37.63 2.69 F
273 299 0.251787 GGGGGTTGATGTCAAAGCCT 60.252 55.0 5.66 0.0 37.63 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1171 1283 0.038021 AAAATGGTGCAATTGCCCCC 59.962 50.0 26.43 24.46 37.82 5.40 R
2030 2503 0.893447 GTCCTAGCGGTTACCAGTGT 59.107 55.0 1.13 0.00 0.00 3.55 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
26 27 5.335261 TGTACTCCAACCTCCATTACACTA 58.665 41.667 0.00 0.00 0.00 2.74
93 102 1.930656 CTCCAACTCCCACCCCCAT 60.931 63.158 0.00 0.00 0.00 4.00
123 148 4.058721 CATCGAGATGGTGTTGTGGATA 57.941 45.455 5.22 0.00 35.24 2.59
172 197 1.118838 GATGCTACCTCTGCTCTGGT 58.881 55.000 0.00 0.00 40.12 4.00
176 201 1.786937 CTACCTCTGCTCTGGTGGAT 58.213 55.000 5.56 0.00 37.03 3.41
179 204 1.624479 CCTCTGCTCTGGTGGATGCT 61.624 60.000 0.00 0.00 0.00 3.79
193 218 1.304282 ATGCTGGTCCCGCATCTTT 59.696 52.632 14.54 0.00 44.24 2.52
208 233 1.390565 TCTTTTCCGGTCGCCAAAAA 58.609 45.000 0.00 0.00 0.00 1.94
260 286 3.009714 GGCTTCTCCTCGGGGGTT 61.010 66.667 0.00 0.00 36.25 4.11
261 287 2.269241 GCTTCTCCTCGGGGGTTG 59.731 66.667 0.00 0.00 36.25 3.77
262 288 2.291043 GCTTCTCCTCGGGGGTTGA 61.291 63.158 0.00 0.00 36.25 3.18
263 289 1.627297 GCTTCTCCTCGGGGGTTGAT 61.627 60.000 0.00 0.00 36.25 2.57
264 290 0.179000 CTTCTCCTCGGGGGTTGATG 59.821 60.000 0.00 0.00 36.25 3.07
265 291 0.546747 TTCTCCTCGGGGGTTGATGT 60.547 55.000 0.00 0.00 36.25 3.06
266 292 0.976073 TCTCCTCGGGGGTTGATGTC 60.976 60.000 0.00 0.00 36.25 3.06
267 293 1.229368 TCCTCGGGGGTTGATGTCA 60.229 57.895 0.00 0.00 36.25 3.58
268 294 0.838554 TCCTCGGGGGTTGATGTCAA 60.839 55.000 0.00 0.00 36.25 3.18
269 295 0.037590 CCTCGGGGGTTGATGTCAAA 59.962 55.000 0.00 0.00 37.63 2.69
270 296 1.453155 CTCGGGGGTTGATGTCAAAG 58.547 55.000 0.00 0.00 37.63 2.77
271 297 0.608035 TCGGGGGTTGATGTCAAAGC 60.608 55.000 0.00 0.00 37.63 3.51
272 298 1.595093 CGGGGGTTGATGTCAAAGCC 61.595 60.000 0.00 0.00 37.63 4.35
273 299 0.251787 GGGGGTTGATGTCAAAGCCT 60.252 55.000 5.66 0.00 37.63 4.58
274 300 1.632589 GGGGTTGATGTCAAAGCCTT 58.367 50.000 5.66 0.00 37.63 4.35
275 301 1.970640 GGGGTTGATGTCAAAGCCTTT 59.029 47.619 5.66 0.00 37.63 3.11
276 302 2.289010 GGGGTTGATGTCAAAGCCTTTG 60.289 50.000 10.99 10.99 41.96 2.77
277 303 2.627699 GGGTTGATGTCAAAGCCTTTGA 59.372 45.455 15.70 15.70 46.68 2.69
306 332 8.755696 TTTTTACATGGCAGCTTAAGTTAATG 57.244 30.769 4.02 5.93 0.00 1.90
307 333 7.461182 TTTACATGGCAGCTTAAGTTAATGT 57.539 32.000 14.53 14.53 0.00 2.71
308 334 5.567138 ACATGGCAGCTTAAGTTAATGTC 57.433 39.130 4.02 1.08 0.00 3.06
309 335 5.009631 ACATGGCAGCTTAAGTTAATGTCA 58.990 37.500 4.02 6.10 0.00 3.58
310 336 5.653769 ACATGGCAGCTTAAGTTAATGTCAT 59.346 36.000 9.51 9.51 36.69 3.06
311 337 5.565592 TGGCAGCTTAAGTTAATGTCATG 57.434 39.130 4.02 0.00 0.00 3.07
312 338 4.398988 TGGCAGCTTAAGTTAATGTCATGG 59.601 41.667 4.02 0.00 0.00 3.66
313 339 4.354587 GCAGCTTAAGTTAATGTCATGGC 58.645 43.478 4.02 0.00 0.00 4.40
314 340 4.142403 GCAGCTTAAGTTAATGTCATGGCA 60.142 41.667 0.60 0.60 0.00 4.92
315 341 5.622007 GCAGCTTAAGTTAATGTCATGGCAA 60.622 40.000 3.01 0.00 0.00 4.52
316 342 6.389091 CAGCTTAAGTTAATGTCATGGCAAA 58.611 36.000 3.01 0.00 0.00 3.68
317 343 6.529125 CAGCTTAAGTTAATGTCATGGCAAAG 59.471 38.462 3.01 2.41 0.00 2.77
318 344 6.209391 AGCTTAAGTTAATGTCATGGCAAAGT 59.791 34.615 3.01 0.00 0.00 2.66
319 345 6.868339 GCTTAAGTTAATGTCATGGCAAAGTT 59.132 34.615 3.01 7.06 0.00 2.66
320 346 8.026607 GCTTAAGTTAATGTCATGGCAAAGTTA 58.973 33.333 3.01 6.02 0.00 2.24
321 347 9.906660 CTTAAGTTAATGTCATGGCAAAGTTAA 57.093 29.630 17.58 17.58 0.00 2.01
322 348 9.906660 TTAAGTTAATGTCATGGCAAAGTTAAG 57.093 29.630 15.81 0.00 0.00 1.85
323 349 7.759489 AGTTAATGTCATGGCAAAGTTAAGA 57.241 32.000 3.01 0.00 0.00 2.10
324 350 8.353423 AGTTAATGTCATGGCAAAGTTAAGAT 57.647 30.769 3.01 0.00 0.00 2.40
325 351 8.806146 AGTTAATGTCATGGCAAAGTTAAGATT 58.194 29.630 3.01 0.00 0.00 2.40
326 352 9.423061 GTTAATGTCATGGCAAAGTTAAGATTT 57.577 29.630 3.01 0.00 0.00 2.17
327 353 9.995003 TTAATGTCATGGCAAAGTTAAGATTTT 57.005 25.926 3.01 0.00 0.00 1.82
328 354 8.538409 AATGTCATGGCAAAGTTAAGATTTTC 57.462 30.769 3.01 0.00 0.00 2.29
329 355 7.288810 TGTCATGGCAAAGTTAAGATTTTCT 57.711 32.000 0.00 0.00 0.00 2.52
330 356 7.725251 TGTCATGGCAAAGTTAAGATTTTCTT 58.275 30.769 0.00 0.00 40.35 2.52
331 357 8.203485 TGTCATGGCAAAGTTAAGATTTTCTTT 58.797 29.630 0.00 0.00 37.89 2.52
332 358 8.490355 GTCATGGCAAAGTTAAGATTTTCTTTG 58.510 33.333 10.77 10.77 45.13 2.77
338 364 8.369218 CAAAGTTAAGATTTTCTTTGCCATGT 57.631 30.769 0.00 0.00 39.71 3.21
339 365 8.490355 CAAAGTTAAGATTTTCTTTGCCATGTC 58.510 33.333 0.00 0.00 39.71 3.06
340 366 7.288810 AGTTAAGATTTTCTTTGCCATGTCA 57.711 32.000 0.00 0.00 37.89 3.58
341 367 7.725251 AGTTAAGATTTTCTTTGCCATGTCAA 58.275 30.769 0.00 0.00 37.89 3.18
342 368 8.203485 AGTTAAGATTTTCTTTGCCATGTCAAA 58.797 29.630 1.47 1.47 37.89 2.69
347 373 2.074547 CTTTGCCATGTCAAAGCCTG 57.925 50.000 15.57 0.00 44.11 4.85
348 374 1.614903 CTTTGCCATGTCAAAGCCTGA 59.385 47.619 15.57 0.00 44.11 3.86
349 375 1.250328 TTGCCATGTCAAAGCCTGAG 58.750 50.000 0.00 0.00 33.60 3.35
350 376 0.401356 TGCCATGTCAAAGCCTGAGA 59.599 50.000 0.00 0.00 33.60 3.27
351 377 1.005097 TGCCATGTCAAAGCCTGAGAT 59.995 47.619 0.00 0.00 38.56 2.75
355 381 4.778534 CATGTCAAAGCCTGAGATGTTT 57.221 40.909 12.85 0.00 46.13 2.83
356 382 5.130292 CATGTCAAAGCCTGAGATGTTTT 57.870 39.130 12.85 0.00 46.13 2.43
357 383 5.535333 CATGTCAAAGCCTGAGATGTTTTT 58.465 37.500 12.85 0.00 46.13 1.94
377 403 5.782893 TTTTACATGGCAGCTTAAGTTGT 57.217 34.783 18.99 9.03 0.00 3.32
378 404 6.885952 TTTTACATGGCAGCTTAAGTTGTA 57.114 33.333 18.99 10.20 0.00 2.41
379 405 5.873179 TTACATGGCAGCTTAAGTTGTAC 57.127 39.130 18.99 13.27 0.00 2.90
380 406 4.021102 ACATGGCAGCTTAAGTTGTACT 57.979 40.909 18.99 3.17 0.00 2.73
381 407 5.160607 ACATGGCAGCTTAAGTTGTACTA 57.839 39.130 18.99 3.76 0.00 1.82
382 408 4.935808 ACATGGCAGCTTAAGTTGTACTAC 59.064 41.667 18.99 0.00 0.00 2.73
383 409 3.581755 TGGCAGCTTAAGTTGTACTACG 58.418 45.455 18.99 0.00 0.00 3.51
384 410 3.006110 TGGCAGCTTAAGTTGTACTACGT 59.994 43.478 18.99 0.00 0.00 3.57
385 411 4.218200 TGGCAGCTTAAGTTGTACTACGTA 59.782 41.667 18.99 0.00 0.00 3.57
386 412 4.560427 GGCAGCTTAAGTTGTACTACGTAC 59.440 45.833 18.99 1.13 39.24 3.67
387 413 5.156355 GCAGCTTAAGTTGTACTACGTACA 58.844 41.667 18.99 2.93 45.63 2.90
388 414 5.803967 GCAGCTTAAGTTGTACTACGTACAT 59.196 40.000 18.99 0.00 46.36 2.29
389 415 6.237490 GCAGCTTAAGTTGTACTACGTACATG 60.237 42.308 18.99 0.00 46.36 3.21
390 416 5.803967 AGCTTAAGTTGTACTACGTACATGC 59.196 40.000 7.58 7.86 46.36 4.06
391 417 5.005107 GCTTAAGTTGTACTACGTACATGCC 59.995 44.000 7.58 0.82 46.36 4.40
392 418 4.524316 AAGTTGTACTACGTACATGCCA 57.476 40.909 7.58 0.00 46.36 4.92
393 419 4.730949 AGTTGTACTACGTACATGCCAT 57.269 40.909 7.58 0.00 46.36 4.40
394 420 4.430007 AGTTGTACTACGTACATGCCATG 58.570 43.478 2.40 2.40 46.36 3.66
395 421 3.446310 TGTACTACGTACATGCCATGG 57.554 47.619 7.63 7.63 42.99 3.66
396 422 2.132762 GTACTACGTACATGCCATGGC 58.867 52.381 30.54 30.54 38.71 4.40
397 423 2.482316 GTACTACGTACATGCCATGGCA 60.482 50.000 40.04 40.04 42.35 4.92
398 424 3.985892 GTACTACGTACATGCCATGGCAA 60.986 47.826 41.27 24.25 42.01 4.52
399 425 5.448459 GTACTACGTACATGCCATGGCAAA 61.448 45.833 41.27 26.64 42.01 3.68
400 426 7.197398 GTACTACGTACATGCCATGGCAAAG 62.197 48.000 41.27 34.93 42.01 2.77
433 459 7.913674 TTTTTGCCATGTCAAAACTTAAGTT 57.086 28.000 13.82 15.22 43.24 2.66
434 460 6.900568 TTTGCCATGTCAAAACTTAAGTTG 57.099 33.333 21.22 11.01 38.44 3.16
435 461 5.590530 TGCCATGTCAAAACTTAAGTTGT 57.409 34.783 21.22 13.53 38.44 3.32
436 462 6.701145 TGCCATGTCAAAACTTAAGTTGTA 57.299 33.333 21.22 7.44 38.44 2.41
437 463 6.500041 TGCCATGTCAAAACTTAAGTTGTAC 58.500 36.000 21.22 17.92 38.44 2.90
438 464 6.320164 TGCCATGTCAAAACTTAAGTTGTACT 59.680 34.615 21.22 3.00 38.44 2.73
439 465 7.499563 TGCCATGTCAAAACTTAAGTTGTACTA 59.500 33.333 21.22 9.05 38.44 1.82
440 466 7.801783 GCCATGTCAAAACTTAAGTTGTACTAC 59.198 37.037 21.22 14.14 38.44 2.73
441 467 8.832521 CCATGTCAAAACTTAAGTTGTACTACA 58.167 33.333 21.22 18.46 38.44 2.74
444 470 9.826574 TGTCAAAACTTAAGTTGTACTACATCT 57.173 29.630 21.22 0.00 38.44 2.90
477 503 5.929058 TTTGCCATGGTAAATTAGCATCA 57.071 34.783 22.45 8.27 44.36 3.07
478 504 6.482898 TTTGCCATGGTAAATTAGCATCAT 57.517 33.333 22.45 0.00 44.36 2.45
479 505 6.482898 TTGCCATGGTAAATTAGCATCATT 57.517 33.333 13.43 0.00 44.36 2.57
480 506 6.482898 TGCCATGGTAAATTAGCATCATTT 57.517 33.333 14.67 0.00 44.36 2.32
481 507 6.282167 TGCCATGGTAAATTAGCATCATTTG 58.718 36.000 14.67 5.44 44.36 2.32
482 508 6.097981 TGCCATGGTAAATTAGCATCATTTGA 59.902 34.615 14.67 0.00 44.36 2.69
483 509 6.421801 GCCATGGTAAATTAGCATCATTTGAC 59.578 38.462 14.67 0.00 44.36 3.18
484 510 7.490840 CCATGGTAAATTAGCATCATTTGACA 58.509 34.615 14.02 0.00 44.36 3.58
485 511 7.436080 CCATGGTAAATTAGCATCATTTGACAC 59.564 37.037 14.02 0.00 44.36 3.67
486 512 6.550843 TGGTAAATTAGCATCATTTGACACG 58.449 36.000 0.19 0.00 0.00 4.49
487 513 6.372937 TGGTAAATTAGCATCATTTGACACGA 59.627 34.615 0.19 0.00 0.00 4.35
488 514 6.687105 GGTAAATTAGCATCATTTGACACGAC 59.313 38.462 0.00 0.00 0.00 4.34
489 515 6.500684 AAATTAGCATCATTTGACACGACT 57.499 33.333 0.00 0.00 0.00 4.18
490 516 7.609760 AAATTAGCATCATTTGACACGACTA 57.390 32.000 0.00 0.00 0.00 2.59
491 517 7.609760 AATTAGCATCATTTGACACGACTAA 57.390 32.000 0.00 0.00 0.00 2.24
492 518 7.792374 ATTAGCATCATTTGACACGACTAAT 57.208 32.000 0.00 0.00 0.00 1.73
493 519 7.609760 TTAGCATCATTTGACACGACTAATT 57.390 32.000 0.00 0.00 0.00 1.40
494 520 6.500684 AGCATCATTTGACACGACTAATTT 57.499 33.333 0.00 0.00 0.00 1.82
495 521 7.609760 AGCATCATTTGACACGACTAATTTA 57.390 32.000 0.00 0.00 0.00 1.40
496 522 7.464358 AGCATCATTTGACACGACTAATTTAC 58.536 34.615 0.00 0.00 0.00 2.01
497 523 7.119116 AGCATCATTTGACACGACTAATTTACA 59.881 33.333 0.00 0.00 0.00 2.41
498 524 7.910162 GCATCATTTGACACGACTAATTTACAT 59.090 33.333 0.00 0.00 0.00 2.29
499 525 9.773328 CATCATTTGACACGACTAATTTACATT 57.227 29.630 0.00 0.00 0.00 2.71
500 526 9.988350 ATCATTTGACACGACTAATTTACATTC 57.012 29.630 0.00 0.00 0.00 2.67
501 527 8.447833 TCATTTGACACGACTAATTTACATTCC 58.552 33.333 0.00 0.00 0.00 3.01
502 528 7.972832 TTTGACACGACTAATTTACATTCCT 57.027 32.000 0.00 0.00 0.00 3.36
503 529 7.972832 TTGACACGACTAATTTACATTCCTT 57.027 32.000 0.00 0.00 0.00 3.36
504 530 7.972832 TGACACGACTAATTTACATTCCTTT 57.027 32.000 0.00 0.00 0.00 3.11
505 531 8.385898 TGACACGACTAATTTACATTCCTTTT 57.614 30.769 0.00 0.00 0.00 2.27
506 532 9.491675 TGACACGACTAATTTACATTCCTTTTA 57.508 29.630 0.00 0.00 0.00 1.52
507 533 9.750882 GACACGACTAATTTACATTCCTTTTAC 57.249 33.333 0.00 0.00 0.00 2.01
508 534 8.724229 ACACGACTAATTTACATTCCTTTTACC 58.276 33.333 0.00 0.00 0.00 2.85
509 535 7.901377 CACGACTAATTTACATTCCTTTTACCG 59.099 37.037 0.00 0.00 0.00 4.02
510 536 6.903479 CGACTAATTTACATTCCTTTTACCGC 59.097 38.462 0.00 0.00 0.00 5.68
511 537 7.201582 CGACTAATTTACATTCCTTTTACCGCT 60.202 37.037 0.00 0.00 0.00 5.52
512 538 9.101655 GACTAATTTACATTCCTTTTACCGCTA 57.898 33.333 0.00 0.00 0.00 4.26
513 539 8.886719 ACTAATTTACATTCCTTTTACCGCTAC 58.113 33.333 0.00 0.00 0.00 3.58
514 540 7.690952 AATTTACATTCCTTTTACCGCTACA 57.309 32.000 0.00 0.00 0.00 2.74
515 541 7.875327 ATTTACATTCCTTTTACCGCTACAT 57.125 32.000 0.00 0.00 0.00 2.29
516 542 6.913873 TTACATTCCTTTTACCGCTACATC 57.086 37.500 0.00 0.00 0.00 3.06
517 543 5.099042 ACATTCCTTTTACCGCTACATCT 57.901 39.130 0.00 0.00 0.00 2.90
518 544 5.497474 ACATTCCTTTTACCGCTACATCTT 58.503 37.500 0.00 0.00 0.00 2.40
519 545 5.944007 ACATTCCTTTTACCGCTACATCTTT 59.056 36.000 0.00 0.00 0.00 2.52
520 546 6.433093 ACATTCCTTTTACCGCTACATCTTTT 59.567 34.615 0.00 0.00 0.00 2.27
521 547 6.490566 TTCCTTTTACCGCTACATCTTTTC 57.509 37.500 0.00 0.00 0.00 2.29
522 548 5.553123 TCCTTTTACCGCTACATCTTTTCA 58.447 37.500 0.00 0.00 0.00 2.69
523 549 6.177610 TCCTTTTACCGCTACATCTTTTCAT 58.822 36.000 0.00 0.00 0.00 2.57
524 550 6.657541 TCCTTTTACCGCTACATCTTTTCATT 59.342 34.615 0.00 0.00 0.00 2.57
525 551 7.175990 TCCTTTTACCGCTACATCTTTTCATTT 59.824 33.333 0.00 0.00 0.00 2.32
526 552 7.812669 CCTTTTACCGCTACATCTTTTCATTTT 59.187 33.333 0.00 0.00 0.00 1.82
527 553 9.834628 CTTTTACCGCTACATCTTTTCATTTTA 57.165 29.630 0.00 0.00 0.00 1.52
528 554 9.834628 TTTTACCGCTACATCTTTTCATTTTAG 57.165 29.630 0.00 0.00 0.00 1.85
529 555 8.556213 TTACCGCTACATCTTTTCATTTTAGT 57.444 30.769 0.00 0.00 0.00 2.24
530 556 9.656040 TTACCGCTACATCTTTTCATTTTAGTA 57.344 29.630 0.00 0.00 0.00 1.82
531 557 8.556213 ACCGCTACATCTTTTCATTTTAGTAA 57.444 30.769 0.00 0.00 0.00 2.24
532 558 9.005777 ACCGCTACATCTTTTCATTTTAGTAAA 57.994 29.630 0.00 0.00 0.00 2.01
545 571 9.840427 TTCATTTTAGTAAATAGCTGCAAAGAC 57.160 29.630 1.02 0.00 32.75 3.01
546 572 9.008965 TCATTTTAGTAAATAGCTGCAAAGACA 57.991 29.630 1.02 0.00 32.75 3.41
547 573 9.624697 CATTTTAGTAAATAGCTGCAAAGACAA 57.375 29.630 1.02 0.00 32.75 3.18
548 574 9.626045 ATTTTAGTAAATAGCTGCAAAGACAAC 57.374 29.630 1.02 0.00 32.25 3.32
549 575 7.737972 TTAGTAAATAGCTGCAAAGACAACA 57.262 32.000 1.02 0.00 0.00 3.33
550 576 6.633500 AGTAAATAGCTGCAAAGACAACAA 57.367 33.333 1.02 0.00 0.00 2.83
551 577 7.038154 AGTAAATAGCTGCAAAGACAACAAA 57.962 32.000 1.02 0.00 0.00 2.83
552 578 7.661040 AGTAAATAGCTGCAAAGACAACAAAT 58.339 30.769 1.02 0.00 0.00 2.32
583 669 4.591321 ATTATCCTTTTGCCCTCAGTGA 57.409 40.909 0.00 0.00 0.00 3.41
675 761 0.861837 CGTTCTGTGAACTCTGGCAC 59.138 55.000 8.51 0.00 35.63 5.01
849 951 3.984508 GCTATATAAGCGGGCGATAGA 57.015 47.619 0.00 0.00 42.53 1.98
850 952 4.303086 GCTATATAAGCGGGCGATAGAA 57.697 45.455 0.00 0.00 42.53 2.10
1171 1283 2.135933 GCGAGAATGGGGTAAGAATCG 58.864 52.381 0.00 0.00 0.00 3.34
1257 1369 1.881973 GCAGGTGACATGCTTCTTTCA 59.118 47.619 15.63 0.00 40.59 2.69
1613 1865 6.870971 TCACCTAGTTTAAATGTTGGTCAC 57.129 37.500 0.00 0.00 0.00 3.67
1814 2075 9.755064 CAAGTTAAGTAATCCAGTTCAAATACG 57.245 33.333 0.00 0.00 0.00 3.06
1968 2439 3.788333 ATGAAGGATGGAAAATGCACG 57.212 42.857 0.00 0.00 0.00 5.34
2030 2503 2.489437 GGGTTTGTGGTGTTTAGGGCTA 60.489 50.000 0.00 0.00 0.00 3.93
2055 2528 3.302161 TGGTAACCGCTAGGACATATGT 58.698 45.455 8.43 8.43 41.02 2.29
2058 2531 4.021368 GGTAACCGCTAGGACATATGTCAT 60.021 45.833 31.51 28.24 46.47 3.06
2169 2644 3.751175 CGCATGAGAGTGGTTTTCCTTTA 59.249 43.478 0.00 0.00 41.38 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
154 179 0.829333 CACCAGAGCAGAGGTAGCAT 59.171 55.000 0.00 0.00 36.07 3.79
179 204 1.376683 CGGAAAAGATGCGGGACCA 60.377 57.895 0.00 0.00 39.48 4.02
219 245 4.431131 CTGGCCTGCCAATCCCGT 62.431 66.667 12.66 0.00 46.63 5.28
254 280 0.251787 AGGCTTTGACATCAACCCCC 60.252 55.000 0.00 0.00 35.28 5.40
256 282 2.627699 TCAAAGGCTTTGACATCAACCC 59.372 45.455 32.85 0.00 44.21 4.11
281 307 8.364142 ACATTAACTTAAGCTGCCATGTAAAAA 58.636 29.630 1.29 0.00 0.00 1.94
282 308 7.891561 ACATTAACTTAAGCTGCCATGTAAAA 58.108 30.769 1.29 0.00 0.00 1.52
283 309 7.175816 TGACATTAACTTAAGCTGCCATGTAAA 59.824 33.333 1.29 0.00 0.00 2.01
284 310 6.657117 TGACATTAACTTAAGCTGCCATGTAA 59.343 34.615 1.29 0.00 0.00 2.41
285 311 6.176896 TGACATTAACTTAAGCTGCCATGTA 58.823 36.000 1.29 0.00 0.00 2.29
286 312 5.009631 TGACATTAACTTAAGCTGCCATGT 58.990 37.500 1.29 4.44 0.00 3.21
287 313 5.565592 TGACATTAACTTAAGCTGCCATG 57.434 39.130 1.29 1.28 0.00 3.66
288 314 5.068198 CCATGACATTAACTTAAGCTGCCAT 59.932 40.000 1.29 0.00 0.00 4.40
289 315 4.398988 CCATGACATTAACTTAAGCTGCCA 59.601 41.667 1.29 0.00 0.00 4.92
290 316 4.734695 GCCATGACATTAACTTAAGCTGCC 60.735 45.833 1.29 0.00 0.00 4.85
291 317 4.142403 TGCCATGACATTAACTTAAGCTGC 60.142 41.667 1.29 0.00 0.00 5.25
292 318 5.565592 TGCCATGACATTAACTTAAGCTG 57.434 39.130 1.29 0.00 0.00 4.24
293 319 6.209391 ACTTTGCCATGACATTAACTTAAGCT 59.791 34.615 1.29 0.00 0.00 3.74
294 320 6.389906 ACTTTGCCATGACATTAACTTAAGC 58.610 36.000 1.29 0.00 0.00 3.09
295 321 9.906660 TTAACTTTGCCATGACATTAACTTAAG 57.093 29.630 0.00 0.00 0.00 1.85
296 322 9.906660 CTTAACTTTGCCATGACATTAACTTAA 57.093 29.630 0.00 0.00 0.00 1.85
297 323 9.290988 TCTTAACTTTGCCATGACATTAACTTA 57.709 29.630 0.00 0.00 0.00 2.24
298 324 8.177119 TCTTAACTTTGCCATGACATTAACTT 57.823 30.769 0.00 0.00 0.00 2.66
299 325 7.759489 TCTTAACTTTGCCATGACATTAACT 57.241 32.000 0.00 0.00 0.00 2.24
300 326 8.986477 AATCTTAACTTTGCCATGACATTAAC 57.014 30.769 0.00 0.00 0.00 2.01
301 327 9.995003 AAAATCTTAACTTTGCCATGACATTAA 57.005 25.926 0.00 0.00 0.00 1.40
302 328 9.638239 GAAAATCTTAACTTTGCCATGACATTA 57.362 29.630 0.00 0.00 0.00 1.90
303 329 8.370182 AGAAAATCTTAACTTTGCCATGACATT 58.630 29.630 0.00 0.00 0.00 2.71
304 330 7.899973 AGAAAATCTTAACTTTGCCATGACAT 58.100 30.769 0.00 0.00 0.00 3.06
305 331 7.288810 AGAAAATCTTAACTTTGCCATGACA 57.711 32.000 0.00 0.00 0.00 3.58
306 332 8.490355 CAAAGAAAATCTTAACTTTGCCATGAC 58.510 33.333 0.00 0.00 41.22 3.06
307 333 8.592105 CAAAGAAAATCTTAACTTTGCCATGA 57.408 30.769 0.00 0.00 41.22 3.07
313 339 8.369218 ACATGGCAAAGAAAATCTTAACTTTG 57.631 30.769 0.00 0.00 46.45 2.77
314 340 8.203485 TGACATGGCAAAGAAAATCTTAACTTT 58.797 29.630 0.00 0.00 35.27 2.66
315 341 7.725251 TGACATGGCAAAGAAAATCTTAACTT 58.275 30.769 0.00 0.00 35.27 2.66
316 342 7.288810 TGACATGGCAAAGAAAATCTTAACT 57.711 32.000 0.00 0.00 35.27 2.24
317 343 7.945033 TTGACATGGCAAAGAAAATCTTAAC 57.055 32.000 12.79 0.00 35.27 2.01
329 355 1.614903 CTCAGGCTTTGACATGGCAAA 59.385 47.619 24.92 24.92 36.43 3.68
330 356 1.202915 TCTCAGGCTTTGACATGGCAA 60.203 47.619 10.79 10.79 0.00 4.52
331 357 0.401356 TCTCAGGCTTTGACATGGCA 59.599 50.000 0.00 0.00 0.00 4.92
332 358 1.404391 CATCTCAGGCTTTGACATGGC 59.596 52.381 0.00 0.00 30.94 4.40
333 359 2.719739 ACATCTCAGGCTTTGACATGG 58.280 47.619 0.00 0.00 36.75 3.66
334 360 4.778534 AAACATCTCAGGCTTTGACATG 57.221 40.909 0.00 0.00 37.96 3.21
335 361 5.796424 AAAAACATCTCAGGCTTTGACAT 57.204 34.783 0.00 0.00 0.00 3.06
354 380 6.155475 ACAACTTAAGCTGCCATGTAAAAA 57.845 33.333 5.78 0.00 0.00 1.94
355 381 5.782893 ACAACTTAAGCTGCCATGTAAAA 57.217 34.783 5.78 0.00 0.00 1.52
356 382 6.001460 AGTACAACTTAAGCTGCCATGTAAA 58.999 36.000 5.78 0.00 0.00 2.01
357 383 5.556915 AGTACAACTTAAGCTGCCATGTAA 58.443 37.500 5.78 0.00 0.00 2.41
358 384 5.160607 AGTACAACTTAAGCTGCCATGTA 57.839 39.130 5.78 2.66 0.00 2.29
359 385 4.021102 AGTACAACTTAAGCTGCCATGT 57.979 40.909 5.78 3.50 0.00 3.21
360 386 4.032900 CGTAGTACAACTTAAGCTGCCATG 59.967 45.833 5.78 0.00 0.00 3.66
361 387 4.181578 CGTAGTACAACTTAAGCTGCCAT 58.818 43.478 5.78 0.00 0.00 4.40
362 388 3.006110 ACGTAGTACAACTTAAGCTGCCA 59.994 43.478 5.78 0.00 41.94 4.92
363 389 3.582780 ACGTAGTACAACTTAAGCTGCC 58.417 45.455 5.78 0.00 41.94 4.85
377 403 2.519377 GCCATGGCATGTACGTAGTA 57.481 50.000 32.08 0.00 41.18 1.82
378 404 3.379650 GCCATGGCATGTACGTAGT 57.620 52.632 32.08 0.00 42.93 2.73
409 435 7.389053 ACAACTTAAGTTTTGACATGGCAAAAA 59.611 29.630 35.06 20.77 45.93 1.94
410 436 6.876257 ACAACTTAAGTTTTGACATGGCAAAA 59.124 30.769 31.13 31.13 43.31 2.44
411 437 6.402222 ACAACTTAAGTTTTGACATGGCAAA 58.598 32.000 22.97 22.97 35.83 3.68
412 438 5.971763 ACAACTTAAGTTTTGACATGGCAA 58.028 33.333 18.25 10.79 35.83 4.52
413 439 5.590530 ACAACTTAAGTTTTGACATGGCA 57.409 34.783 18.25 0.00 35.83 4.92
414 440 6.735130 AGTACAACTTAAGTTTTGACATGGC 58.265 36.000 18.25 0.00 35.83 4.40
415 441 8.832521 TGTAGTACAACTTAAGTTTTGACATGG 58.167 33.333 18.25 7.24 35.83 3.66
418 444 9.826574 AGATGTAGTACAACTTAAGTTTTGACA 57.173 29.630 18.25 16.37 35.83 3.58
453 479 6.705302 TGATGCTAATTTACCATGGCAAAAA 58.295 32.000 14.14 11.43 33.44 1.94
454 480 6.291648 TGATGCTAATTTACCATGGCAAAA 57.708 33.333 14.14 13.84 33.44 2.44
455 481 5.929058 TGATGCTAATTTACCATGGCAAA 57.071 34.783 13.04 12.78 33.44 3.68
456 482 6.482898 AATGATGCTAATTTACCATGGCAA 57.517 33.333 13.04 1.21 33.44 4.52
457 483 6.097981 TCAAATGATGCTAATTTACCATGGCA 59.902 34.615 13.04 0.00 0.00 4.92
458 484 6.421801 GTCAAATGATGCTAATTTACCATGGC 59.578 38.462 13.04 0.00 0.00 4.40
459 485 7.436080 GTGTCAAATGATGCTAATTTACCATGG 59.564 37.037 11.19 11.19 0.00 3.66
460 486 7.166307 CGTGTCAAATGATGCTAATTTACCATG 59.834 37.037 0.00 0.00 0.00 3.66
461 487 7.066887 TCGTGTCAAATGATGCTAATTTACCAT 59.933 33.333 0.00 0.00 0.00 3.55
462 488 6.372937 TCGTGTCAAATGATGCTAATTTACCA 59.627 34.615 0.00 0.00 0.00 3.25
463 489 6.687105 GTCGTGTCAAATGATGCTAATTTACC 59.313 38.462 0.00 0.00 0.00 2.85
464 490 7.464358 AGTCGTGTCAAATGATGCTAATTTAC 58.536 34.615 0.00 0.00 0.00 2.01
465 491 7.609760 AGTCGTGTCAAATGATGCTAATTTA 57.390 32.000 0.00 0.00 0.00 1.40
466 492 6.500684 AGTCGTGTCAAATGATGCTAATTT 57.499 33.333 0.00 0.00 0.00 1.82
467 493 7.609760 TTAGTCGTGTCAAATGATGCTAATT 57.390 32.000 0.00 0.00 0.00 1.40
468 494 7.792374 ATTAGTCGTGTCAAATGATGCTAAT 57.208 32.000 0.00 0.00 0.00 1.73
469 495 7.609760 AATTAGTCGTGTCAAATGATGCTAA 57.390 32.000 0.00 0.00 0.00 3.09
470 496 7.609760 AAATTAGTCGTGTCAAATGATGCTA 57.390 32.000 0.00 0.00 0.00 3.49
471 497 6.500684 AAATTAGTCGTGTCAAATGATGCT 57.499 33.333 0.00 0.00 0.00 3.79
472 498 7.240674 TGTAAATTAGTCGTGTCAAATGATGC 58.759 34.615 0.00 0.00 0.00 3.91
473 499 9.773328 AATGTAAATTAGTCGTGTCAAATGATG 57.227 29.630 0.00 0.00 0.00 3.07
474 500 9.988350 GAATGTAAATTAGTCGTGTCAAATGAT 57.012 29.630 0.00 0.00 0.00 2.45
475 501 8.447833 GGAATGTAAATTAGTCGTGTCAAATGA 58.552 33.333 0.00 0.00 0.00 2.57
476 502 8.450964 AGGAATGTAAATTAGTCGTGTCAAATG 58.549 33.333 0.00 0.00 0.00 2.32
477 503 8.561738 AGGAATGTAAATTAGTCGTGTCAAAT 57.438 30.769 0.00 0.00 0.00 2.32
478 504 7.972832 AGGAATGTAAATTAGTCGTGTCAAA 57.027 32.000 0.00 0.00 0.00 2.69
479 505 7.972832 AAGGAATGTAAATTAGTCGTGTCAA 57.027 32.000 0.00 0.00 0.00 3.18
480 506 7.972832 AAAGGAATGTAAATTAGTCGTGTCA 57.027 32.000 0.00 0.00 0.00 3.58
481 507 9.750882 GTAAAAGGAATGTAAATTAGTCGTGTC 57.249 33.333 0.00 0.00 0.00 3.67
482 508 8.724229 GGTAAAAGGAATGTAAATTAGTCGTGT 58.276 33.333 0.00 0.00 0.00 4.49
483 509 7.901377 CGGTAAAAGGAATGTAAATTAGTCGTG 59.099 37.037 0.00 0.00 0.00 4.35
484 510 7.413328 GCGGTAAAAGGAATGTAAATTAGTCGT 60.413 37.037 0.00 0.00 0.00 4.34
485 511 6.903479 GCGGTAAAAGGAATGTAAATTAGTCG 59.097 38.462 0.00 0.00 0.00 4.18
486 512 7.982224 AGCGGTAAAAGGAATGTAAATTAGTC 58.018 34.615 0.00 0.00 0.00 2.59
487 513 7.933215 AGCGGTAAAAGGAATGTAAATTAGT 57.067 32.000 0.00 0.00 0.00 2.24
488 514 8.885722 TGTAGCGGTAAAAGGAATGTAAATTAG 58.114 33.333 0.00 0.00 0.00 1.73
489 515 8.789825 TGTAGCGGTAAAAGGAATGTAAATTA 57.210 30.769 0.00 0.00 0.00 1.40
490 516 7.690952 TGTAGCGGTAAAAGGAATGTAAATT 57.309 32.000 0.00 0.00 0.00 1.82
491 517 7.773690 AGATGTAGCGGTAAAAGGAATGTAAAT 59.226 33.333 0.00 0.00 0.00 1.40
492 518 7.107542 AGATGTAGCGGTAAAAGGAATGTAAA 58.892 34.615 0.00 0.00 0.00 2.01
493 519 6.646267 AGATGTAGCGGTAAAAGGAATGTAA 58.354 36.000 0.00 0.00 0.00 2.41
494 520 6.229936 AGATGTAGCGGTAAAAGGAATGTA 57.770 37.500 0.00 0.00 0.00 2.29
495 521 5.099042 AGATGTAGCGGTAAAAGGAATGT 57.901 39.130 0.00 0.00 0.00 2.71
496 522 6.436843 AAAGATGTAGCGGTAAAAGGAATG 57.563 37.500 0.00 0.00 0.00 2.67
497 523 6.657541 TGAAAAGATGTAGCGGTAAAAGGAAT 59.342 34.615 0.00 0.00 0.00 3.01
498 524 5.998981 TGAAAAGATGTAGCGGTAAAAGGAA 59.001 36.000 0.00 0.00 0.00 3.36
499 525 5.553123 TGAAAAGATGTAGCGGTAAAAGGA 58.447 37.500 0.00 0.00 0.00 3.36
500 526 5.873179 TGAAAAGATGTAGCGGTAAAAGG 57.127 39.130 0.00 0.00 0.00 3.11
501 527 8.742554 AAAATGAAAAGATGTAGCGGTAAAAG 57.257 30.769 0.00 0.00 0.00 2.27
502 528 9.834628 CTAAAATGAAAAGATGTAGCGGTAAAA 57.165 29.630 0.00 0.00 0.00 1.52
503 529 9.005777 ACTAAAATGAAAAGATGTAGCGGTAAA 57.994 29.630 0.00 0.00 0.00 2.01
504 530 8.556213 ACTAAAATGAAAAGATGTAGCGGTAA 57.444 30.769 0.00 0.00 0.00 2.85
505 531 9.656040 TTACTAAAATGAAAAGATGTAGCGGTA 57.344 29.630 0.00 0.00 0.00 4.02
506 532 8.556213 TTACTAAAATGAAAAGATGTAGCGGT 57.444 30.769 0.00 0.00 0.00 5.68
519 545 9.840427 GTCTTTGCAGCTATTTACTAAAATGAA 57.160 29.630 0.00 0.00 36.02 2.57
520 546 9.008965 TGTCTTTGCAGCTATTTACTAAAATGA 57.991 29.630 0.00 0.00 36.02 2.57
521 547 9.624697 TTGTCTTTGCAGCTATTTACTAAAATG 57.375 29.630 0.00 0.00 36.02 2.32
522 548 9.626045 GTTGTCTTTGCAGCTATTTACTAAAAT 57.374 29.630 0.00 0.00 38.80 1.82
523 549 8.625651 TGTTGTCTTTGCAGCTATTTACTAAAA 58.374 29.630 0.00 0.00 0.00 1.52
524 550 8.160521 TGTTGTCTTTGCAGCTATTTACTAAA 57.839 30.769 0.00 0.00 0.00 1.85
525 551 7.737972 TGTTGTCTTTGCAGCTATTTACTAA 57.262 32.000 0.00 0.00 0.00 2.24
526 552 7.737972 TTGTTGTCTTTGCAGCTATTTACTA 57.262 32.000 0.00 0.00 0.00 1.82
527 553 6.633500 TTGTTGTCTTTGCAGCTATTTACT 57.367 33.333 0.00 0.00 0.00 2.24
528 554 7.873739 ATTTGTTGTCTTTGCAGCTATTTAC 57.126 32.000 0.00 0.00 0.00 2.01
529 555 8.885494 AAATTTGTTGTCTTTGCAGCTATTTA 57.115 26.923 0.00 0.00 0.00 1.40
530 556 7.790823 AAATTTGTTGTCTTTGCAGCTATTT 57.209 28.000 0.00 0.00 0.00 1.40
531 557 7.599998 CCTAAATTTGTTGTCTTTGCAGCTATT 59.400 33.333 0.00 0.00 0.00 1.73
532 558 7.092716 CCTAAATTTGTTGTCTTTGCAGCTAT 58.907 34.615 0.00 0.00 0.00 2.97
533 559 6.446318 CCTAAATTTGTTGTCTTTGCAGCTA 58.554 36.000 0.00 0.00 0.00 3.32
534 560 5.291971 CCTAAATTTGTTGTCTTTGCAGCT 58.708 37.500 0.00 0.00 0.00 4.24
535 561 4.448732 CCCTAAATTTGTTGTCTTTGCAGC 59.551 41.667 0.00 0.00 0.00 5.25
536 562 5.600696 ACCCTAAATTTGTTGTCTTTGCAG 58.399 37.500 0.00 0.00 0.00 4.41
537 563 5.606348 ACCCTAAATTTGTTGTCTTTGCA 57.394 34.783 0.00 0.00 0.00 4.08
538 564 8.601845 ATTAACCCTAAATTTGTTGTCTTTGC 57.398 30.769 0.00 0.00 0.00 3.68
549 575 9.899661 GGCAAAAGGATAATTAACCCTAAATTT 57.100 29.630 8.09 0.00 0.00 1.82
550 576 8.491134 GGGCAAAAGGATAATTAACCCTAAATT 58.509 33.333 8.09 3.65 31.84 1.82
551 577 7.849389 AGGGCAAAAGGATAATTAACCCTAAAT 59.151 33.333 8.09 0.00 43.36 1.40
552 578 7.193338 AGGGCAAAAGGATAATTAACCCTAAA 58.807 34.615 8.09 0.00 43.36 1.85
583 669 2.490903 GCAAAACTGAGCAGATGGACAT 59.509 45.455 4.21 0.00 0.00 3.06
627 713 0.679960 GCACGGACTAGGGGCAAAAT 60.680 55.000 0.00 0.00 0.00 1.82
846 944 1.005867 GCCGTGGTCACCGTTTCTA 60.006 57.895 0.00 0.00 0.00 2.10
849 951 4.224274 TCGCCGTGGTCACCGTTT 62.224 61.111 0.00 0.00 0.00 3.60
850 952 4.955774 GTCGCCGTGGTCACCGTT 62.956 66.667 0.00 0.00 0.00 4.44
969 1079 1.153823 CGAACGGGATCTCAACGCT 60.154 57.895 0.00 0.00 0.00 5.07
1171 1283 0.038021 AAAATGGTGCAATTGCCCCC 59.962 50.000 26.43 24.46 37.82 5.40
1257 1369 1.153086 GCCAGAGCATCGACCCAAT 60.153 57.895 0.00 0.00 42.67 3.16
1356 1468 1.484240 CCATCTCTTCTTCCGGAGCTT 59.516 52.381 3.34 0.00 0.00 3.74
1672 1931 8.558973 TTCTGAATTCCTCATTTCTTCTCTTC 57.441 34.615 2.27 0.00 32.14 2.87
1674 1934 8.162746 AGTTTCTGAATTCCTCATTTCTTCTCT 58.837 33.333 2.27 0.00 32.14 3.10
1791 2052 7.184779 GGCGTATTTGAACTGGATTACTTAAC 58.815 38.462 0.00 0.00 0.00 2.01
1804 2065 6.743627 TGATTTAAATCACGGCGTATTTGAAC 59.256 34.615 23.86 18.90 40.32 3.18
1814 2075 5.054390 TGGTCTTTGATTTAAATCACGGC 57.946 39.130 26.69 21.21 44.54 5.68
1955 2426 5.049543 CACCAATTTTTCGTGCATTTTCCAT 60.050 36.000 0.00 0.00 0.00 3.41
1968 2439 1.135112 CCCTAGCCGCACCAATTTTTC 60.135 52.381 0.00 0.00 0.00 2.29
2030 2503 0.893447 GTCCTAGCGGTTACCAGTGT 59.107 55.000 1.13 0.00 0.00 3.55
2055 2528 3.054434 CCCTACCCATGTCAAACTCATGA 60.054 47.826 7.36 0.00 43.47 3.07
2058 2531 2.626785 TCCCTACCCATGTCAAACTCA 58.373 47.619 0.00 0.00 0.00 3.41
2150 2625 7.154656 GCAAAATAAAGGAAAACCACTCTCAT 58.845 34.615 0.00 0.00 0.00 2.90
2169 2644 5.065235 CCCTCCAAAATTTCAGTGCAAAAT 58.935 37.500 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.