Multiple sequence alignment - TraesCS1D01G075900

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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 TraesCS1D01G075900 chr1D 100.000 4010 0 0 1 4010 58448061 58452070 0.000000e+00 7406.0
1 TraesCS1D01G075900 chr1D 88.396 293 20 3 1 281 58620792 58620502 1.380000e-89 340.0
2 TraesCS1D01G075900 chr1D 87.302 252 16 6 397 643 58620467 58620227 1.420000e-69 274.0
3 TraesCS1D01G075900 chr1A 91.151 1763 121 20 853 2595 57189726 57191473 0.000000e+00 2359.0
4 TraesCS1D01G075900 chr1A 90.683 1771 122 23 861 2601 57394896 57393139 0.000000e+00 2316.0
5 TraesCS1D01G075900 chr1A 95.825 958 20 8 3073 4010 57192068 57193025 0.000000e+00 1530.0
6 TraesCS1D01G075900 chr1A 93.627 408 18 6 2602 3007 57393090 57392689 1.590000e-168 603.0
7 TraesCS1D01G075900 chr1A 92.347 392 19 5 2638 3022 57191556 57191943 7.580000e-152 547.0
8 TraesCS1D01G075900 chr1A 88.079 302 15 4 1 282 57397205 57396905 4.960000e-89 339.0
9 TraesCS1D01G075900 chr1A 86.395 294 27 2 1 282 57310972 57310680 3.890000e-80 309.0
10 TraesCS1D01G075900 chr1A 93.434 198 12 1 76 273 57189080 57189276 3.920000e-75 292.0
11 TraesCS1D01G075900 chr1A 87.243 243 11 9 402 638 57189324 57189552 3.980000e-65 259.0
12 TraesCS1D01G075900 chr1A 85.992 257 12 13 395 638 57396873 57396628 1.850000e-63 254.0
13 TraesCS1D01G075900 chr1A 87.069 116 4 4 402 517 57310641 57310537 1.960000e-23 121.0
14 TraesCS1D01G075900 chr1B 87.886 2039 124 54 2030 4010 94185872 94183899 0.000000e+00 2283.0
15 TraesCS1D01G075900 chr1B 89.731 1188 97 15 877 2049 94208704 94207527 0.000000e+00 1495.0
16 TraesCS1D01G075900 chr1B 90.803 685 44 8 3341 4010 94200139 94199459 0.000000e+00 898.0
17 TraesCS1D01G075900 chr1B 92.619 569 32 5 2040 2601 94201894 94201329 0.000000e+00 809.0
18 TraesCS1D01G075900 chr1B 88.571 630 53 6 857 1484 94186929 94186317 0.000000e+00 747.0
19 TraesCS1D01G075900 chr1B 94.853 408 21 0 1575 1982 94186289 94185882 4.370000e-179 638.0
20 TraesCS1D01G075900 chr1B 91.914 371 25 3 2638 3007 94201250 94200884 7.680000e-142 514.0
21 TraesCS1D01G075900 chr1B 88.612 281 19 2 1 268 94209972 94209692 2.990000e-86 329.0
22 TraesCS1D01G075900 chr1B 90.278 72 7 0 734 805 94208798 94208727 1.190000e-15 95.3
23 TraesCS1D01G075900 chr1B 84.706 85 4 3 312 396 240487958 240488033 4.300000e-10 76.8
24 TraesCS1D01G075900 chr1B 89.362 47 5 0 3093 3139 94200533 94200487 4.330000e-05 60.2
25 TraesCS1D01G075900 chr7D 93.103 58 3 1 278 335 5307736 5307680 2.570000e-12 84.2
26 TraesCS1D01G075900 chr7D 97.872 47 1 0 352 398 493547855 493547809 9.240000e-12 82.4
27 TraesCS1D01G075900 chr4D 93.103 58 3 1 278 335 15786198 15786254 2.570000e-12 84.2
28 TraesCS1D01G075900 chr4D 97.826 46 1 0 353 398 218516240 218516285 3.320000e-11 80.5
29 TraesCS1D01G075900 chr2D 95.918 49 2 0 353 401 328357032 328357080 3.320000e-11 80.5
30 TraesCS1D01G075900 chr2B 90.323 62 4 2 275 335 646215389 646215329 3.320000e-11 80.5
31 TraesCS1D01G075900 chr4B 95.833 48 2 0 353 400 101712108 101712061 1.190000e-10 78.7
32 TraesCS1D01G075900 chr3D 97.778 45 1 0 353 397 563633846 563633890 1.190000e-10 78.7
33 TraesCS1D01G075900 chr3D 90.909 55 3 2 353 405 94644800 94644746 5.560000e-09 73.1
34 TraesCS1D01G075900 chr7A 92.453 53 4 0 347 399 19955469 19955417 4.300000e-10 76.8
35 TraesCS1D01G075900 chr7A 96.875 32 0 1 304 335 1687425 1687395 7.000000e-03 52.8
36 TraesCS1D01G075900 chr5D 89.286 56 6 0 353 408 370941332 370941277 2.000000e-08 71.3


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 TraesCS1D01G075900 chr1D 58448061 58452070 4009 False 7406.000000 7406 100.000000 1 4010 1 chr1D.!!$F1 4009
1 TraesCS1D01G075900 chr1D 58620227 58620792 565 True 307.000000 340 87.849000 1 643 2 chr1D.!!$R1 642
2 TraesCS1D01G075900 chr1A 57189080 57193025 3945 False 997.400000 2359 92.000000 76 4010 5 chr1A.!!$F1 3934
3 TraesCS1D01G075900 chr1A 57392689 57397205 4516 True 878.000000 2316 89.595250 1 3007 4 chr1A.!!$R2 3006
4 TraesCS1D01G075900 chr1B 94183899 94186929 3030 True 1222.666667 2283 90.436667 857 4010 3 chr1B.!!$R1 3153
5 TraesCS1D01G075900 chr1B 94207527 94209972 2445 True 639.766667 1495 89.540333 1 2049 3 chr1B.!!$R3 2048
6 TraesCS1D01G075900 chr1B 94199459 94201894 2435 True 570.300000 898 91.174500 2040 4010 4 chr1B.!!$R2 1970

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
360 382 0.115349 AGGACAGAGGGCACTAGTGT 59.885 55.0 23.44 3.06 0.0 3.55 F
718 2450 0.468400 TTTTTGGCGGGGCTACTGTT 60.468 50.0 0.00 0.00 0.0 3.16 F
719 2451 0.468400 TTTTGGCGGGGCTACTGTTT 60.468 50.0 0.00 0.00 0.0 2.83 F
720 2452 0.468400 TTTGGCGGGGCTACTGTTTT 60.468 50.0 0.00 0.00 0.0 2.43 F
721 2453 0.468400 TTGGCGGGGCTACTGTTTTT 60.468 50.0 0.00 0.00 0.0 1.94 F
1569 3334 0.604578 TAAACCGAGACTGAACCCCG 59.395 55.0 0.00 0.00 0.0 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1569 3334 0.746659 ACAACAGCAGTGAAAAGGGC 59.253 50.000 0.00 0.0 0.00 5.19 R
2085 3874 0.811915 TGCTCTAGCTTCACGAGTCC 59.188 55.000 3.26 0.0 42.66 3.85 R
2532 4342 4.825085 TCTGGTACAATTTTGGGTGAGAAC 59.175 41.667 0.00 0.0 38.70 3.01 R
2719 4587 9.342308 GATGTACATGATCCCTGAATTTCTTTA 57.658 33.333 14.43 0.0 0.00 1.85 R
2733 4608 7.895975 TTAGCATAGCAAGATGTACATGATC 57.104 36.000 14.43 0.0 0.00 2.92 R
3050 5242 0.108774 GTATAGCCCCAGGTGAAGCC 59.891 60.000 0.00 0.0 37.58 4.35 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
42 43 2.232941 CAGATTTTGCTGGACTGGCATT 59.767 45.455 0.00 0.00 39.54 3.56
96 117 4.099824 GGGACAAGTTTGTGTTTGTTACG 58.900 43.478 1.62 0.00 42.43 3.18
141 162 4.498241 GTTTGGGGAATTCTGAGAATTGC 58.502 43.478 25.36 25.36 0.00 3.56
194 215 9.003658 AGTGACTGTTAATACTCCTTTGATTTG 57.996 33.333 0.00 0.00 0.00 2.32
221 242 5.101648 TCACATGCATCACCAAGATTCTA 57.898 39.130 0.00 0.00 33.72 2.10
269 291 1.701847 ACTCCACCAAGAATGCTGTCT 59.298 47.619 0.00 0.00 0.00 3.41
270 292 2.082231 CTCCACCAAGAATGCTGTCTG 58.918 52.381 0.00 0.00 0.00 3.51
271 293 1.699083 TCCACCAAGAATGCTGTCTGA 59.301 47.619 0.00 0.00 0.00 3.27
272 294 2.082231 CCACCAAGAATGCTGTCTGAG 58.918 52.381 0.00 0.00 0.00 3.35
282 304 2.017138 GCTGTCTGAGCCTTTACTCC 57.983 55.000 0.00 0.00 42.54 3.85
283 305 1.406205 GCTGTCTGAGCCTTTACTCCC 60.406 57.143 0.00 0.00 42.54 4.30
284 306 2.183679 CTGTCTGAGCCTTTACTCCCT 58.816 52.381 0.00 0.00 35.72 4.20
286 308 2.567615 TGTCTGAGCCTTTACTCCCTTC 59.432 50.000 0.00 0.00 35.72 3.46
287 309 1.825474 TCTGAGCCTTTACTCCCTTCG 59.175 52.381 0.00 0.00 35.72 3.79
290 312 0.903236 AGCCTTTACTCCCTTCGTCC 59.097 55.000 0.00 0.00 0.00 4.79
293 315 1.066358 CCTTTACTCCCTTCGTCCCAC 60.066 57.143 0.00 0.00 0.00 4.61
294 316 1.621814 CTTTACTCCCTTCGTCCCACA 59.378 52.381 0.00 0.00 0.00 4.17
295 317 1.719529 TTACTCCCTTCGTCCCACAA 58.280 50.000 0.00 0.00 0.00 3.33
296 318 1.946984 TACTCCCTTCGTCCCACAAT 58.053 50.000 0.00 0.00 0.00 2.71
297 319 1.946984 ACTCCCTTCGTCCCACAATA 58.053 50.000 0.00 0.00 0.00 1.90
298 320 2.478292 ACTCCCTTCGTCCCACAATAT 58.522 47.619 0.00 0.00 0.00 1.28
299 321 3.649843 ACTCCCTTCGTCCCACAATATA 58.350 45.455 0.00 0.00 0.00 0.86
300 322 4.035112 ACTCCCTTCGTCCCACAATATAA 58.965 43.478 0.00 0.00 0.00 0.98
301 323 4.472108 ACTCCCTTCGTCCCACAATATAAA 59.528 41.667 0.00 0.00 0.00 1.40
302 324 5.045432 ACTCCCTTCGTCCCACAATATAAAA 60.045 40.000 0.00 0.00 0.00 1.52
304 326 4.036380 CCCTTCGTCCCACAATATAAAAGC 59.964 45.833 0.00 0.00 0.00 3.51
305 327 4.260620 CCTTCGTCCCACAATATAAAAGCG 60.261 45.833 0.00 0.00 0.00 4.68
306 328 3.864243 TCGTCCCACAATATAAAAGCGT 58.136 40.909 0.00 0.00 0.00 5.07
308 330 4.696402 TCGTCCCACAATATAAAAGCGTTT 59.304 37.500 2.53 2.53 0.00 3.60
309 331 5.181622 TCGTCCCACAATATAAAAGCGTTTT 59.818 36.000 2.19 1.29 36.67 2.43
310 332 5.859648 CGTCCCACAATATAAAAGCGTTTTT 59.140 36.000 14.50 14.50 39.69 1.94
311 333 6.183359 CGTCCCACAATATAAAAGCGTTTTTG 60.183 38.462 18.77 6.09 37.12 2.44
312 334 6.643360 GTCCCACAATATAAAAGCGTTTTTGT 59.357 34.615 18.77 14.86 37.12 2.83
313 335 6.642950 TCCCACAATATAAAAGCGTTTTTGTG 59.357 34.615 23.08 23.08 39.99 3.33
314 336 6.422400 CCCACAATATAAAAGCGTTTTTGTGT 59.578 34.615 25.55 13.69 39.33 3.72
315 337 7.358848 CCCACAATATAAAAGCGTTTTTGTGTC 60.359 37.037 25.55 0.00 39.33 3.67
316 338 7.168302 CCACAATATAAAAGCGTTTTTGTGTCA 59.832 33.333 25.55 0.07 39.33 3.58
317 339 8.535592 CACAATATAAAAGCGTTTTTGTGTCAA 58.464 29.630 22.34 0.00 37.77 3.18
318 340 9.088512 ACAATATAAAAGCGTTTTTGTGTCAAA 57.911 25.926 18.77 0.00 37.12 2.69
319 341 9.907576 CAATATAAAAGCGTTTTTGTGTCAAAA 57.092 25.926 18.77 3.93 37.12 2.44
321 343 9.909043 ATATAAAAGCGTTTTTGTGTCAAAAAC 57.091 25.926 26.83 26.83 43.16 2.43
327 349 5.509605 GTTTTTGTGTCAAAAACGCTCTT 57.490 34.783 24.53 0.00 39.40 2.85
328 350 6.620253 GTTTTTGTGTCAAAAACGCTCTTA 57.380 33.333 24.53 2.74 39.40 2.10
329 351 7.216920 GTTTTTGTGTCAAAAACGCTCTTAT 57.783 32.000 24.53 0.00 39.40 1.73
330 352 8.330302 GTTTTTGTGTCAAAAACGCTCTTATA 57.670 30.769 24.53 1.64 39.40 0.98
331 353 8.964150 GTTTTTGTGTCAAAAACGCTCTTATAT 58.036 29.630 24.53 0.00 39.40 0.86
332 354 9.522804 TTTTTGTGTCAAAAACGCTCTTATATT 57.477 25.926 13.87 0.00 39.23 1.28
337 359 9.564041 GTGTCAAAAACGCTCTTATATTATACG 57.436 33.333 0.00 0.00 35.42 3.06
338 360 9.304731 TGTCAAAAACGCTCTTATATTATACGT 57.695 29.630 0.00 0.00 0.00 3.57
346 368 9.605275 ACGCTCTTATATTATACGTATAGGACA 57.395 33.333 14.60 1.58 0.00 4.02
352 374 7.820578 ATATTATACGTATAGGACAGAGGGC 57.179 40.000 14.60 0.00 0.00 5.19
353 375 3.520691 ATACGTATAGGACAGAGGGCA 57.479 47.619 6.21 0.00 0.00 5.36
354 376 1.400737 ACGTATAGGACAGAGGGCAC 58.599 55.000 0.00 0.00 0.00 5.01
355 377 1.063867 ACGTATAGGACAGAGGGCACT 60.064 52.381 0.00 0.00 0.00 4.40
356 378 2.174210 ACGTATAGGACAGAGGGCACTA 59.826 50.000 0.00 0.00 0.00 2.74
357 379 2.814919 CGTATAGGACAGAGGGCACTAG 59.185 54.545 0.00 0.00 0.00 2.57
358 380 3.748027 CGTATAGGACAGAGGGCACTAGT 60.748 52.174 0.00 0.00 0.00 2.57
359 381 2.145397 TAGGACAGAGGGCACTAGTG 57.855 55.000 18.93 18.93 0.00 2.74
360 382 0.115349 AGGACAGAGGGCACTAGTGT 59.885 55.000 23.44 3.06 0.00 3.55
361 383 1.358103 AGGACAGAGGGCACTAGTGTA 59.642 52.381 23.44 0.00 0.00 2.90
362 384 2.176889 GGACAGAGGGCACTAGTGTAA 58.823 52.381 23.44 0.00 0.00 2.41
363 385 2.565834 GGACAGAGGGCACTAGTGTAAA 59.434 50.000 23.44 0.00 0.00 2.01
364 386 3.007614 GGACAGAGGGCACTAGTGTAAAA 59.992 47.826 23.44 0.00 0.00 1.52
365 387 4.504340 GGACAGAGGGCACTAGTGTAAAAA 60.504 45.833 23.44 0.00 0.00 1.94
388 410 9.754382 AAAAACGCTCTTATATTATAGGACGAA 57.246 29.630 16.71 0.00 0.00 3.85
389 411 8.967552 AAACGCTCTTATATTATAGGACGAAG 57.032 34.615 16.71 2.07 0.00 3.79
390 412 7.086230 ACGCTCTTATATTATAGGACGAAGG 57.914 40.000 16.71 2.08 0.00 3.46
391 413 6.095160 ACGCTCTTATATTATAGGACGAAGGG 59.905 42.308 16.71 8.68 0.00 3.95
392 414 6.318144 CGCTCTTATATTATAGGACGAAGGGA 59.682 42.308 0.00 0.00 0.00 4.20
393 415 7.467539 CGCTCTTATATTATAGGACGAAGGGAG 60.468 44.444 0.00 0.00 0.00 4.30
400 422 2.903375 AGGACGAAGGGAGTAGAACT 57.097 50.000 0.00 0.00 0.00 3.01
409 431 5.127356 CGAAGGGAGTAGAACTATTCCTGTT 59.873 44.000 18.19 13.51 40.55 3.16
455 477 5.978814 AGACAAGACACAATCCCTACATAC 58.021 41.667 0.00 0.00 0.00 2.39
456 478 5.721960 AGACAAGACACAATCCCTACATACT 59.278 40.000 0.00 0.00 0.00 2.12
457 479 5.978814 ACAAGACACAATCCCTACATACTC 58.021 41.667 0.00 0.00 0.00 2.59
458 480 5.483937 ACAAGACACAATCCCTACATACTCA 59.516 40.000 0.00 0.00 0.00 3.41
476 498 7.448469 ACATACTCAATGGTAGCTGAAACTTTT 59.552 33.333 0.00 0.00 40.16 2.27
477 499 6.076981 ACTCAATGGTAGCTGAAACTTTTG 57.923 37.500 0.00 0.00 0.00 2.44
478 500 4.870363 TCAATGGTAGCTGAAACTTTTGC 58.130 39.130 0.00 0.00 0.00 3.68
479 501 4.340666 TCAATGGTAGCTGAAACTTTTGCA 59.659 37.500 0.00 0.00 0.00 4.08
481 503 4.935352 TGGTAGCTGAAACTTTTGCATT 57.065 36.364 0.00 0.00 0.00 3.56
482 504 4.870363 TGGTAGCTGAAACTTTTGCATTC 58.130 39.130 0.00 0.00 0.00 2.67
483 505 4.584325 TGGTAGCTGAAACTTTTGCATTCT 59.416 37.500 0.00 0.00 0.00 2.40
484 506 5.767665 TGGTAGCTGAAACTTTTGCATTCTA 59.232 36.000 0.00 0.00 0.00 2.10
485 507 6.086871 GGTAGCTGAAACTTTTGCATTCTAC 58.913 40.000 0.00 0.00 0.00 2.59
486 508 6.072452 GGTAGCTGAAACTTTTGCATTCTACT 60.072 38.462 0.00 0.00 0.00 2.57
487 509 7.119262 GGTAGCTGAAACTTTTGCATTCTACTA 59.881 37.037 0.00 0.00 0.00 1.82
488 510 6.903419 AGCTGAAACTTTTGCATTCTACTAC 58.097 36.000 0.00 0.00 0.00 2.73
489 511 6.712547 AGCTGAAACTTTTGCATTCTACTACT 59.287 34.615 0.00 0.00 0.00 2.57
490 512 6.798959 GCTGAAACTTTTGCATTCTACTACTG 59.201 38.462 0.00 0.00 0.00 2.74
491 513 7.520614 GCTGAAACTTTTGCATTCTACTACTGT 60.521 37.037 0.00 0.00 0.00 3.55
521 548 5.904984 AAATTGGCCCCTCTTTTAAACTT 57.095 34.783 0.00 0.00 0.00 2.66
529 556 5.637810 GCCCCTCTTTTAAACTTTTGTATGC 59.362 40.000 0.00 0.00 0.00 3.14
547 582 2.523245 TGCCTTGTACATGGATTGCAA 58.477 42.857 27.38 0.00 0.00 4.08
598 633 6.652900 AGAGATTTTTGTAGGCTCTGTTCTTC 59.347 38.462 0.00 0.00 34.85 2.87
605 640 1.622811 AGGCTCTGTTCTTCTCCACTG 59.377 52.381 0.00 0.00 0.00 3.66
629 665 4.262894 GGAGGAATTGGTAAGTCTGTGTGA 60.263 45.833 0.00 0.00 0.00 3.58
643 679 6.275335 AGTCTGTGTGATTTTGGACAATTTG 58.725 36.000 0.00 0.00 0.00 2.32
644 680 6.096705 AGTCTGTGTGATTTTGGACAATTTGA 59.903 34.615 2.79 0.00 0.00 2.69
661 845 9.167311 GACAATTTGATGGTAGTCTATGTCTTT 57.833 33.333 2.79 0.00 0.00 2.52
671 859 8.088981 TGGTAGTCTATGTCTTTTCTTGAGTTC 58.911 37.037 0.00 0.00 0.00 3.01
716 2448 4.089105 TTTTTGGCGGGGCTACTG 57.911 55.556 0.00 0.00 0.00 2.74
717 2449 1.151908 TTTTTGGCGGGGCTACTGT 59.848 52.632 0.00 0.00 0.00 3.55
718 2450 0.468400 TTTTTGGCGGGGCTACTGTT 60.468 50.000 0.00 0.00 0.00 3.16
719 2451 0.468400 TTTTGGCGGGGCTACTGTTT 60.468 50.000 0.00 0.00 0.00 2.83
720 2452 0.468400 TTTGGCGGGGCTACTGTTTT 60.468 50.000 0.00 0.00 0.00 2.43
721 2453 0.468400 TTGGCGGGGCTACTGTTTTT 60.468 50.000 0.00 0.00 0.00 1.94
740 2472 4.810191 TTTTTAGGCCAAGTGTTTGTGT 57.190 36.364 5.01 0.00 32.21 3.72
742 2474 6.472686 TTTTTAGGCCAAGTGTTTGTGTAT 57.527 33.333 5.01 0.00 32.21 2.29
755 2487 1.313772 TGTGTATTGTTGCTTGGCGT 58.686 45.000 0.00 0.00 0.00 5.68
787 2520 1.342975 GGGCCAAAAGGATACATGGGT 60.343 52.381 4.39 0.00 37.50 4.51
788 2521 1.756538 GGCCAAAAGGATACATGGGTG 59.243 52.381 0.00 0.00 37.50 4.61
800 2537 0.904649 CATGGGTGTGGCAGAGAGTA 59.095 55.000 0.00 0.00 0.00 2.59
805 2542 1.477295 GGTGTGGCAGAGAGTAGGTAC 59.523 57.143 0.00 0.00 0.00 3.34
806 2543 1.477295 GTGTGGCAGAGAGTAGGTACC 59.523 57.143 2.73 2.73 0.00 3.34
818 2559 1.268992 TAGGTACCACCGCATTGCCT 61.269 55.000 15.94 0.00 44.90 4.75
831 2572 2.815589 GCATTGCCTCCGGGAGAATAAT 60.816 50.000 25.60 17.37 33.58 1.28
834 2575 4.993705 TTGCCTCCGGGAGAATAATAAT 57.006 40.909 25.60 0.00 33.58 1.28
835 2576 6.414732 CATTGCCTCCGGGAGAATAATAATA 58.585 40.000 25.60 0.82 33.58 0.98
837 2578 6.442541 TGCCTCCGGGAGAATAATAATAAA 57.557 37.500 25.60 0.00 33.58 1.40
838 2579 6.843752 TGCCTCCGGGAGAATAATAATAAAA 58.156 36.000 25.60 0.00 33.58 1.52
839 2580 7.466804 TGCCTCCGGGAGAATAATAATAAAAT 58.533 34.615 25.60 0.00 33.58 1.82
840 2581 7.947890 TGCCTCCGGGAGAATAATAATAAAATT 59.052 33.333 25.60 0.00 33.58 1.82
841 2582 8.803235 GCCTCCGGGAGAATAATAATAAAATTT 58.197 33.333 25.60 0.00 33.58 1.82
879 2622 9.859152 AAAAATCAAAATAAAAGGAATGGGTGA 57.141 25.926 0.00 0.00 0.00 4.02
922 2671 2.890474 CGGCTATCCACCACGCAC 60.890 66.667 0.00 0.00 0.00 5.34
1031 2780 3.680786 CACGAGCCGTCTCCACCA 61.681 66.667 0.00 0.00 38.32 4.17
1033 2782 3.374402 CGAGCCGTCTCCACCACT 61.374 66.667 0.00 0.00 35.94 4.00
1050 2799 3.691326 TACCTCCTCCCCGCCCTT 61.691 66.667 0.00 0.00 0.00 3.95
1056 2805 2.770048 CTCCCCGCCCTTCCATCT 60.770 66.667 0.00 0.00 0.00 2.90
1069 2818 4.147449 CATCTCGCCCACCTCGCA 62.147 66.667 0.00 0.00 0.00 5.10
1137 2886 2.283604 TCCCGGCTGTACTGCTCA 60.284 61.111 22.05 3.60 0.00 4.26
1271 3022 1.454479 CGAGTACCGGCCCTCCTTA 60.454 63.158 13.68 0.00 33.91 2.69
1343 3094 2.042333 ATCGATCCACCCGTCCCA 60.042 61.111 0.00 0.00 0.00 4.37
1402 3158 4.084223 CCATGCAAGTGATTTTTGTTCAGC 60.084 41.667 0.00 0.00 0.00 4.26
1486 3250 3.454371 TTAGCTAATCTGAACCTCGGC 57.546 47.619 0.86 0.00 0.00 5.54
1488 3252 1.137872 AGCTAATCTGAACCTCGGCTG 59.862 52.381 0.00 0.00 0.00 4.85
1569 3334 0.604578 TAAACCGAGACTGAACCCCG 59.395 55.000 0.00 0.00 0.00 5.73
1589 3354 1.953686 GCCCTTTTCACTGCTGTTGTA 59.046 47.619 0.00 0.00 0.00 2.41
1593 3358 4.819630 CCCTTTTCACTGCTGTTGTACTTA 59.180 41.667 0.00 0.00 0.00 2.24
1673 3447 3.973206 TCTCAAAAGCCTGGATACGAA 57.027 42.857 0.00 0.00 42.51 3.85
2085 3874 6.954944 TCTTTTTCTTACTTGTGATCCGTTG 58.045 36.000 0.00 0.00 0.00 4.10
2423 4220 4.892934 TGCAATAACTTTGTCTCCCAAACT 59.107 37.500 0.00 0.00 38.12 2.66
2488 4293 2.880890 CTGCTTACTGAAACCTGCTTGT 59.119 45.455 0.00 0.00 0.00 3.16
2596 4408 6.780031 TCCTTGAATGGTTAAGTTTCAATCCA 59.220 34.615 7.47 0.00 38.34 3.41
2619 4487 5.523013 GCATGCGGCTTTTATTAAAAACA 57.477 34.783 0.00 1.12 40.25 2.83
2719 4587 3.107601 TGAAGACTATAGCTGCCAGGTT 58.892 45.455 0.00 0.00 0.00 3.50
2733 4608 3.831911 TGCCAGGTTAAAGAAATTCAGGG 59.168 43.478 0.00 0.00 0.00 4.45
2759 4634 8.681486 ATCATGTACATCTTGCTATGCTAAAA 57.319 30.769 5.07 0.00 0.00 1.52
2900 4792 0.968901 TATCGACACGGACAAGGCCT 60.969 55.000 0.00 0.00 0.00 5.19
2932 4824 3.131577 CCTGCTTGGACATATGCACAAAT 59.868 43.478 1.58 0.00 38.35 2.32
2994 4886 2.280103 TGGTCTATGCCCCCAAGTTTA 58.720 47.619 0.00 0.00 0.00 2.01
3012 4904 7.168135 CCAAGTTTAATCTGCTGTTTCTGAAAC 59.832 37.037 22.94 22.94 41.73 2.78
3013 4905 6.739112 AGTTTAATCTGCTGTTTCTGAAACC 58.261 36.000 25.66 14.48 40.67 3.27
3015 4907 4.843220 AATCTGCTGTTTCTGAAACCAG 57.157 40.909 25.66 24.01 40.67 4.00
3022 4914 3.030291 TGTTTCTGAAACCAGGCACATT 58.970 40.909 25.66 0.00 40.67 2.71
3023 4915 3.181477 TGTTTCTGAAACCAGGCACATTG 60.181 43.478 25.66 0.00 40.67 2.82
3024 4916 1.619654 TCTGAAACCAGGCACATTGG 58.380 50.000 0.00 0.00 41.60 3.16
3243 5465 3.859961 AGTTGAATCTCGTATTGTCTGCG 59.140 43.478 0.00 0.00 0.00 5.18
3319 5659 5.551233 ACGGAAGCTACGTATATACCTGTA 58.449 41.667 13.88 4.28 43.60 2.74
3337 5742 5.983720 ACCTGTATGTAAGCGTACATCATTC 59.016 40.000 25.48 15.65 46.01 2.67
3338 5743 6.183360 ACCTGTATGTAAGCGTACATCATTCT 60.183 38.462 25.48 7.46 46.01 2.40
3402 5822 0.674581 CGTCTCCAAGCTGGCATTCA 60.675 55.000 0.00 0.00 37.47 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 2.496871 CCATTAATGCCAGTCCAGCAAA 59.503 45.455 10.11 0.00 44.83 3.68
42 43 1.427368 AGAGTGTTGCCAACCCCATTA 59.573 47.619 4.90 0.00 0.00 1.90
96 117 6.352516 ACCAGATTAAGATCATCAGTGAACC 58.647 40.000 0.00 0.00 38.01 3.62
141 162 7.253422 CAGTTGGTATCAAATAAAGCCTGAAG 58.747 38.462 0.00 0.00 34.28 3.02
194 215 1.456296 TGGTGATGCATGTGAAGAGC 58.544 50.000 2.46 0.00 0.00 4.09
269 291 1.549170 GACGAAGGGAGTAAAGGCTCA 59.451 52.381 0.00 0.00 37.24 4.26
270 292 1.134759 GGACGAAGGGAGTAAAGGCTC 60.135 57.143 0.00 0.00 34.89 4.70
271 293 0.903236 GGACGAAGGGAGTAAAGGCT 59.097 55.000 0.00 0.00 0.00 4.58
272 294 0.107800 GGGACGAAGGGAGTAAAGGC 60.108 60.000 0.00 0.00 0.00 4.35
274 296 1.621814 TGTGGGACGAAGGGAGTAAAG 59.378 52.381 0.00 0.00 0.00 1.85
277 299 1.946984 ATTGTGGGACGAAGGGAGTA 58.053 50.000 0.00 0.00 0.00 2.59
278 300 1.946984 TATTGTGGGACGAAGGGAGT 58.053 50.000 0.00 0.00 0.00 3.85
279 301 4.682778 TTATATTGTGGGACGAAGGGAG 57.317 45.455 0.00 0.00 0.00 4.30
281 303 4.036380 GCTTTTATATTGTGGGACGAAGGG 59.964 45.833 0.00 0.00 0.00 3.95
282 304 4.260620 CGCTTTTATATTGTGGGACGAAGG 60.261 45.833 0.00 0.00 0.00 3.46
283 305 4.331717 ACGCTTTTATATTGTGGGACGAAG 59.668 41.667 0.00 0.00 0.00 3.79
284 306 4.255301 ACGCTTTTATATTGTGGGACGAA 58.745 39.130 0.00 0.00 0.00 3.85
286 308 4.609691 AACGCTTTTATATTGTGGGACG 57.390 40.909 0.00 0.00 0.00 4.79
287 309 6.643360 ACAAAAACGCTTTTATATTGTGGGAC 59.357 34.615 4.08 0.00 32.85 4.46
290 312 7.168302 TGACACAAAAACGCTTTTATATTGTGG 59.832 33.333 24.03 13.26 41.33 4.17
293 315 9.907576 TTTTGACACAAAAACGCTTTTATATTG 57.092 25.926 7.11 0.00 32.85 1.90
295 317 9.909043 GTTTTTGACACAAAAACGCTTTTATAT 57.091 25.926 25.66 0.00 39.40 0.86
305 327 5.509605 AAGAGCGTTTTTGACACAAAAAC 57.490 34.783 27.87 27.87 43.16 2.43
306 328 9.522804 AATATAAGAGCGTTTTTGACACAAAAA 57.477 25.926 15.30 15.30 0.00 1.94
311 333 9.564041 CGTATAATATAAGAGCGTTTTTGACAC 57.436 33.333 0.00 0.00 0.00 3.67
312 334 9.304731 ACGTATAATATAAGAGCGTTTTTGACA 57.695 29.630 0.41 0.00 0.00 3.58
320 342 9.605275 TGTCCTATACGTATAATATAAGAGCGT 57.395 33.333 15.80 0.54 35.29 5.07
326 348 9.347240 GCCCTCTGTCCTATACGTATAATATAA 57.653 37.037 15.80 0.00 0.00 0.98
327 349 8.496916 TGCCCTCTGTCCTATACGTATAATATA 58.503 37.037 15.80 5.25 0.00 0.86
328 350 7.284944 GTGCCCTCTGTCCTATACGTATAATAT 59.715 40.741 15.80 0.00 0.00 1.28
329 351 6.600822 GTGCCCTCTGTCCTATACGTATAATA 59.399 42.308 15.80 4.84 0.00 0.98
330 352 5.418209 GTGCCCTCTGTCCTATACGTATAAT 59.582 44.000 15.80 0.00 0.00 1.28
331 353 4.763793 GTGCCCTCTGTCCTATACGTATAA 59.236 45.833 15.80 0.00 0.00 0.98
332 354 4.042560 AGTGCCCTCTGTCCTATACGTATA 59.957 45.833 14.39 14.39 0.00 1.47
333 355 3.155501 GTGCCCTCTGTCCTATACGTAT 58.844 50.000 13.54 13.54 0.00 3.06
334 356 2.174210 AGTGCCCTCTGTCCTATACGTA 59.826 50.000 0.00 0.00 0.00 3.57
335 357 1.063867 AGTGCCCTCTGTCCTATACGT 60.064 52.381 0.00 0.00 0.00 3.57
336 358 1.693627 AGTGCCCTCTGTCCTATACG 58.306 55.000 0.00 0.00 0.00 3.06
337 359 3.570550 CACTAGTGCCCTCTGTCCTATAC 59.429 52.174 10.54 0.00 0.00 1.47
338 360 3.204606 ACACTAGTGCCCTCTGTCCTATA 59.795 47.826 22.90 0.00 0.00 1.31
339 361 2.023888 ACACTAGTGCCCTCTGTCCTAT 60.024 50.000 22.90 0.00 0.00 2.57
340 362 1.358103 ACACTAGTGCCCTCTGTCCTA 59.642 52.381 22.90 0.00 0.00 2.94
341 363 0.115349 ACACTAGTGCCCTCTGTCCT 59.885 55.000 22.90 0.00 0.00 3.85
342 364 1.848652 TACACTAGTGCCCTCTGTCC 58.151 55.000 22.90 0.00 0.00 4.02
343 365 3.955650 TTTACACTAGTGCCCTCTGTC 57.044 47.619 22.90 0.00 0.00 3.51
344 366 4.699925 TTTTTACACTAGTGCCCTCTGT 57.300 40.909 22.90 3.96 0.00 3.41
362 384 9.754382 TTCGTCCTATAATATAAGAGCGTTTTT 57.246 29.630 0.00 0.00 0.00 1.94
363 385 9.408069 CTTCGTCCTATAATATAAGAGCGTTTT 57.592 33.333 0.00 0.00 0.00 2.43
364 386 8.027771 CCTTCGTCCTATAATATAAGAGCGTTT 58.972 37.037 0.00 0.00 0.00 3.60
365 387 7.362747 CCCTTCGTCCTATAATATAAGAGCGTT 60.363 40.741 0.00 0.00 0.00 4.84
366 388 6.095160 CCCTTCGTCCTATAATATAAGAGCGT 59.905 42.308 0.00 0.00 0.00 5.07
367 389 6.318144 TCCCTTCGTCCTATAATATAAGAGCG 59.682 42.308 0.00 0.00 0.00 5.03
368 390 7.339976 ACTCCCTTCGTCCTATAATATAAGAGC 59.660 40.741 0.00 0.00 0.00 4.09
369 391 8.810990 ACTCCCTTCGTCCTATAATATAAGAG 57.189 38.462 0.00 0.00 0.00 2.85
370 392 9.902684 CTACTCCCTTCGTCCTATAATATAAGA 57.097 37.037 0.00 0.00 0.00 2.10
371 393 9.902684 TCTACTCCCTTCGTCCTATAATATAAG 57.097 37.037 0.00 0.00 0.00 1.73
373 395 9.678260 GTTCTACTCCCTTCGTCCTATAATATA 57.322 37.037 0.00 0.00 0.00 0.86
374 396 8.392479 AGTTCTACTCCCTTCGTCCTATAATAT 58.608 37.037 0.00 0.00 0.00 1.28
375 397 7.753630 AGTTCTACTCCCTTCGTCCTATAATA 58.246 38.462 0.00 0.00 0.00 0.98
376 398 6.612741 AGTTCTACTCCCTTCGTCCTATAAT 58.387 40.000 0.00 0.00 0.00 1.28
377 399 6.011122 AGTTCTACTCCCTTCGTCCTATAA 57.989 41.667 0.00 0.00 0.00 0.98
378 400 5.643421 AGTTCTACTCCCTTCGTCCTATA 57.357 43.478 0.00 0.00 0.00 1.31
379 401 4.523168 AGTTCTACTCCCTTCGTCCTAT 57.477 45.455 0.00 0.00 0.00 2.57
380 402 5.643421 ATAGTTCTACTCCCTTCGTCCTA 57.357 43.478 0.00 0.00 0.00 2.94
381 403 2.903375 AGTTCTACTCCCTTCGTCCT 57.097 50.000 0.00 0.00 0.00 3.85
382 404 4.037803 GGAATAGTTCTACTCCCTTCGTCC 59.962 50.000 0.00 0.00 0.00 4.79
383 405 4.888823 AGGAATAGTTCTACTCCCTTCGTC 59.111 45.833 4.06 0.00 0.00 4.20
384 406 4.645588 CAGGAATAGTTCTACTCCCTTCGT 59.354 45.833 4.06 0.00 0.00 3.85
385 407 4.645588 ACAGGAATAGTTCTACTCCCTTCG 59.354 45.833 4.06 0.00 0.00 3.79
386 408 6.547930 AACAGGAATAGTTCTACTCCCTTC 57.452 41.667 4.06 0.00 0.00 3.46
387 409 7.899709 TCTTAACAGGAATAGTTCTACTCCCTT 59.100 37.037 4.06 0.27 0.00 3.95
388 410 7.342541 GTCTTAACAGGAATAGTTCTACTCCCT 59.657 40.741 4.06 0.00 0.00 4.20
389 411 7.342541 AGTCTTAACAGGAATAGTTCTACTCCC 59.657 40.741 4.06 0.00 0.00 4.30
390 412 8.296211 AGTCTTAACAGGAATAGTTCTACTCC 57.704 38.462 0.00 0.00 0.00 3.85
392 414 8.905850 GCTAGTCTTAACAGGAATAGTTCTACT 58.094 37.037 0.00 0.00 34.92 2.57
393 415 8.905850 AGCTAGTCTTAACAGGAATAGTTCTAC 58.094 37.037 0.00 0.00 34.92 2.59
400 422 5.598830 CAGGGAGCTAGTCTTAACAGGAATA 59.401 44.000 0.00 0.00 0.00 1.75
409 431 6.901300 TCTTAATTTCCAGGGAGCTAGTCTTA 59.099 38.462 0.00 0.00 0.00 2.10
455 477 4.919754 GCAAAAGTTTCAGCTACCATTGAG 59.080 41.667 5.91 0.00 0.00 3.02
456 478 4.340666 TGCAAAAGTTTCAGCTACCATTGA 59.659 37.500 12.47 0.00 0.00 2.57
457 479 4.619973 TGCAAAAGTTTCAGCTACCATTG 58.380 39.130 12.47 0.00 0.00 2.82
458 480 4.935352 TGCAAAAGTTTCAGCTACCATT 57.065 36.364 12.47 0.00 0.00 3.16
481 503 8.689972 GGCCAATTTAACTAGTACAGTAGTAGA 58.310 37.037 24.02 6.71 36.04 2.59
482 504 7.924947 GGGCCAATTTAACTAGTACAGTAGTAG 59.075 40.741 17.79 17.79 36.04 2.57
483 505 7.147672 GGGGCCAATTTAACTAGTACAGTAGTA 60.148 40.741 4.39 0.00 36.04 1.82
484 506 6.352479 GGGGCCAATTTAACTAGTACAGTAGT 60.352 42.308 4.39 0.00 36.04 2.73
485 507 6.053650 GGGGCCAATTTAACTAGTACAGTAG 58.946 44.000 4.39 0.00 36.04 2.57
486 508 5.727766 AGGGGCCAATTTAACTAGTACAGTA 59.272 40.000 4.39 0.00 36.04 2.74
487 509 4.538891 AGGGGCCAATTTAACTAGTACAGT 59.461 41.667 4.39 0.00 40.05 3.55
488 510 5.104485 AGAGGGGCCAATTTAACTAGTACAG 60.104 44.000 4.39 0.00 0.00 2.74
489 511 4.786454 AGAGGGGCCAATTTAACTAGTACA 59.214 41.667 4.39 0.00 0.00 2.90
490 512 5.369409 AGAGGGGCCAATTTAACTAGTAC 57.631 43.478 4.39 0.00 0.00 2.73
491 513 6.397217 AAAGAGGGGCCAATTTAACTAGTA 57.603 37.500 4.39 0.00 0.00 1.82
521 548 5.394005 GCAATCCATGTACAAGGCATACAAA 60.394 40.000 12.38 0.00 36.19 2.83
529 556 7.818930 ACTAAAATTTGCAATCCATGTACAAGG 59.181 33.333 10.98 10.98 0.00 3.61
605 640 3.009143 ACACAGACTTACCAATTCCTCCC 59.991 47.826 0.00 0.00 0.00 4.30
629 665 7.781324 AGACTACCATCAAATTGTCCAAAAT 57.219 32.000 0.00 0.00 0.00 1.82
643 679 8.254508 ACTCAAGAAAAGACATAGACTACCATC 58.745 37.037 0.00 0.00 0.00 3.51
644 680 8.140112 ACTCAAGAAAAGACATAGACTACCAT 57.860 34.615 0.00 0.00 0.00 3.55
700 2432 0.468400 AAACAGTAGCCCCGCCAAAA 60.468 50.000 0.00 0.00 0.00 2.44
701 2433 0.468400 AAAACAGTAGCCCCGCCAAA 60.468 50.000 0.00 0.00 0.00 3.28
702 2434 0.468400 AAAAACAGTAGCCCCGCCAA 60.468 50.000 0.00 0.00 0.00 4.52
703 2435 1.151908 AAAAACAGTAGCCCCGCCA 59.848 52.632 0.00 0.00 0.00 5.69
704 2436 4.090723 AAAAACAGTAGCCCCGCC 57.909 55.556 0.00 0.00 0.00 6.13
719 2451 4.810191 ACACAAACACTTGGCCTAAAAA 57.190 36.364 3.32 0.00 36.82 1.94
720 2452 6.127310 ACAATACACAAACACTTGGCCTAAAA 60.127 34.615 3.32 0.00 36.82 1.52
721 2453 5.361285 ACAATACACAAACACTTGGCCTAAA 59.639 36.000 3.32 0.00 36.82 1.85
722 2454 4.890581 ACAATACACAAACACTTGGCCTAA 59.109 37.500 3.32 0.00 36.82 2.69
723 2455 4.465886 ACAATACACAAACACTTGGCCTA 58.534 39.130 3.32 0.00 36.82 3.93
724 2456 3.295973 ACAATACACAAACACTTGGCCT 58.704 40.909 3.32 0.00 36.82 5.19
725 2457 3.726291 ACAATACACAAACACTTGGCC 57.274 42.857 0.00 0.00 36.82 5.36
726 2458 3.245048 GCAACAATACACAAACACTTGGC 59.755 43.478 0.00 0.00 36.82 4.52
727 2459 4.681744 AGCAACAATACACAAACACTTGG 58.318 39.130 0.00 0.00 36.82 3.61
728 2460 5.005586 CCAAGCAACAATACACAAACACTTG 59.994 40.000 0.00 0.00 38.61 3.16
729 2461 5.108517 CCAAGCAACAATACACAAACACTT 58.891 37.500 0.00 0.00 0.00 3.16
730 2462 4.681744 CCAAGCAACAATACACAAACACT 58.318 39.130 0.00 0.00 0.00 3.55
731 2463 3.245048 GCCAAGCAACAATACACAAACAC 59.755 43.478 0.00 0.00 0.00 3.32
732 2464 3.452474 GCCAAGCAACAATACACAAACA 58.548 40.909 0.00 0.00 0.00 2.83
740 2472 2.894902 TCGATACGCCAAGCAACAATA 58.105 42.857 0.00 0.00 0.00 1.90
742 2474 1.732941 ATCGATACGCCAAGCAACAA 58.267 45.000 0.00 0.00 0.00 2.83
755 2487 3.699038 CCTTTTGGCCCAAGAAATCGATA 59.301 43.478 12.45 0.00 0.00 2.92
787 2520 1.076513 TGGTACCTACTCTCTGCCACA 59.923 52.381 14.36 0.00 0.00 4.17
788 2521 1.477295 GTGGTACCTACTCTCTGCCAC 59.523 57.143 14.36 0.00 38.18 5.01
800 2537 2.045340 GGCAATGCGGTGGTACCT 60.045 61.111 14.36 0.00 35.66 3.08
853 2594 9.859152 TCACCCATTCCTTTTATTTTGATTTTT 57.141 25.926 0.00 0.00 0.00 1.94
854 2595 9.859152 TTCACCCATTCCTTTTATTTTGATTTT 57.141 25.926 0.00 0.00 0.00 1.82
855 2596 9.506018 CTTCACCCATTCCTTTTATTTTGATTT 57.494 29.630 0.00 0.00 0.00 2.17
859 2600 6.768483 ACCTTCACCCATTCCTTTTATTTTG 58.232 36.000 0.00 0.00 0.00 2.44
879 2622 2.029073 CCACACGTCAGCGACCTT 59.971 61.111 0.00 0.00 42.00 3.50
922 2671 2.893637 CGTAGGAATCAACCAGTCAGG 58.106 52.381 0.00 0.00 45.67 3.86
983 2732 2.959484 ATGGGCGTGGACTGGACAG 61.959 63.158 0.00 0.00 0.00 3.51
1031 2780 4.477119 GGGCGGGGAGGAGGTAGT 62.477 72.222 0.00 0.00 0.00 2.73
1033 2782 3.691297 GAAGGGCGGGGAGGAGGTA 62.691 68.421 0.00 0.00 0.00 3.08
1050 2799 3.147595 CGAGGTGGGCGAGATGGA 61.148 66.667 0.00 0.00 0.00 3.41
1069 2818 2.363147 GGCTGAGGAGGACGAGGT 60.363 66.667 0.00 0.00 0.00 3.85
1072 2821 4.779733 GGGGGCTGAGGAGGACGA 62.780 72.222 0.00 0.00 0.00 4.20
1137 2886 1.514678 TAATACGTACCGGCGGCGAT 61.515 55.000 34.49 20.91 35.98 4.58
1271 3022 2.035940 AGGAGGAAGTCGTCGGCT 59.964 61.111 0.00 0.00 0.00 5.52
1343 3094 5.524535 AGGTAGCCAAGTAGAGAGAAGAAT 58.475 41.667 0.00 0.00 0.00 2.40
1402 3158 3.061295 CGAGGAATCATTTCATATCGGCG 59.939 47.826 0.00 0.00 33.66 6.46
1484 3248 0.950555 TTGCATGTGAGTCGACAGCC 60.951 55.000 19.50 6.99 0.00 4.85
1486 3250 1.501169 TGTTGCATGTGAGTCGACAG 58.499 50.000 19.50 1.23 0.00 3.51
1488 3252 4.864916 AATATGTTGCATGTGAGTCGAC 57.135 40.909 7.70 7.70 0.00 4.20
1569 3334 0.746659 ACAACAGCAGTGAAAAGGGC 59.253 50.000 0.00 0.00 0.00 5.19
1673 3447 1.448540 CGCAACTTCGATCAGCCCT 60.449 57.895 0.00 0.00 0.00 5.19
1821 3600 7.328277 TGTAAGAGAAGAGATACAGAGAAGC 57.672 40.000 0.00 0.00 0.00 3.86
2085 3874 0.811915 TGCTCTAGCTTCACGAGTCC 59.188 55.000 3.26 0.00 42.66 3.85
2176 3965 5.195940 CAGATCAATACCCCACTTGACAAT 58.804 41.667 0.00 0.00 34.43 2.71
2423 4220 7.068470 TGCTAAATTGATATCACATGCCTTTGA 59.932 33.333 4.48 0.00 0.00 2.69
2488 4293 6.652900 TCACAATTAGGAAACATCGACATTCA 59.347 34.615 8.41 0.00 0.00 2.57
2525 4335 7.118496 ACAATTTTGGGTGAGAACAATGTTA 57.882 32.000 0.00 0.00 0.00 2.41
2532 4342 4.825085 TCTGGTACAATTTTGGGTGAGAAC 59.175 41.667 0.00 0.00 38.70 3.01
2719 4587 9.342308 GATGTACATGATCCCTGAATTTCTTTA 57.658 33.333 14.43 0.00 0.00 1.85
2733 4608 7.895975 TTAGCATAGCAAGATGTACATGATC 57.104 36.000 14.43 0.00 0.00 2.92
2759 4634 5.618236 TGAGCATAGCTATGAGATTTTGCT 58.382 37.500 33.10 22.84 39.88 3.91
2788 4664 5.240403 GCATTTGGTTGCAAAAAGGGATAAA 59.760 36.000 0.00 0.00 42.31 1.40
2789 4665 4.759183 GCATTTGGTTGCAAAAAGGGATAA 59.241 37.500 0.00 0.00 42.31 1.75
2790 4666 4.322567 GCATTTGGTTGCAAAAAGGGATA 58.677 39.130 0.00 0.00 42.31 2.59
2900 4792 0.850100 TCCAAGCAGGGTTCCTTCAA 59.150 50.000 0.00 0.00 38.24 2.69
2994 4886 3.571401 CCTGGTTTCAGAAACAGCAGATT 59.429 43.478 24.37 0.00 46.95 2.40
3012 4904 3.289836 TGAATCATACCAATGTGCCTGG 58.710 45.455 0.00 0.00 40.05 4.45
3013 4905 3.243301 GCTGAATCATACCAATGTGCCTG 60.243 47.826 0.00 0.00 34.50 4.85
3015 4907 2.689471 TGCTGAATCATACCAATGTGCC 59.311 45.455 0.00 0.00 34.50 5.01
3022 4914 2.689471 GCACCATTGCTGAATCATACCA 59.311 45.455 0.00 0.00 46.17 3.25
3023 4915 3.360249 GCACCATTGCTGAATCATACC 57.640 47.619 0.00 0.00 46.17 2.73
3049 5241 0.327095 TATAGCCCCAGGTGAAGCCA 60.327 55.000 0.00 0.00 40.61 4.75
3050 5242 0.108774 GTATAGCCCCAGGTGAAGCC 59.891 60.000 0.00 0.00 37.58 4.35
3243 5465 5.050837 CCAATTCTTTGCTTTGCTTGTACAC 60.051 40.000 0.00 0.00 0.00 2.90
3337 5742 4.197750 CAAATCTGAGAACAGGATCCCAG 58.802 47.826 8.55 7.62 43.60 4.45
3338 5743 3.588842 ACAAATCTGAGAACAGGATCCCA 59.411 43.478 8.55 0.00 43.60 4.37
3402 5822 1.213926 GGAATGGAATCTGAGCCCAGT 59.786 52.381 0.00 4.34 41.16 4.00
3835 6258 4.451150 TGGATGACGGCGAGGTGC 62.451 66.667 16.62 4.19 45.38 5.01


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

AutoCloner maintained by Alex Coulton.