Multiple sequence alignment - TraesCS2A01G241400

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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 TraesCS2A01G241400 chr2A 100.000 2393 0 0 1 2393 335830419 335828027 0.000000e+00 4420
1 TraesCS2A01G241400 chr2A 95.960 99 4 0 579 677 588452191 588452093 6.850000e-36 161
2 TraesCS2A01G241400 chrUn 98.131 1766 28 4 579 2339 93410683 93412448 0.000000e+00 3073
3 TraesCS2A01G241400 chr5D 97.963 1767 32 4 579 2342 503217165 503215400 0.000000e+00 3061
4 TraesCS2A01G241400 chr5D 96.900 1774 47 6 575 2343 329121155 329122925 0.000000e+00 2964
5 TraesCS2A01G241400 chr5D 97.256 583 12 3 1 579 6180737 6180155 0.000000e+00 985
6 TraesCS2A01G241400 chr5D 96.587 586 13 5 1 579 503287508 503288093 0.000000e+00 965
7 TraesCS2A01G241400 chr5D 96.373 579 19 2 3 579 120800081 120800659 0.000000e+00 952
8 TraesCS2A01G241400 chr5D 95.548 584 21 4 1 579 167072143 167072726 0.000000e+00 929
9 TraesCS2A01G241400 chr5D 97.417 542 9 3 43 579 512416234 512415693 0.000000e+00 918
10 TraesCS2A01G241400 chr6D 97.851 1768 34 4 579 2342 168250487 168248720 0.000000e+00 3051
11 TraesCS2A01G241400 chr6D 97.094 585 10 5 1 579 45511362 45510779 0.000000e+00 979
12 TraesCS2A01G241400 chr2D 97.905 1766 31 5 579 2339 272794946 272796710 0.000000e+00 3051
13 TraesCS2A01G241400 chr3A 97.112 1766 44 7 579 2339 672911061 672912824 0.000000e+00 2972
14 TraesCS2A01G241400 chr6A 96.719 1768 47 8 579 2339 260117334 260119097 0.000000e+00 2933
15 TraesCS2A01G241400 chr7A 94.274 1764 90 9 579 2339 352182865 352184620 0.000000e+00 2687
16 TraesCS2A01G241400 chr1D 95.790 1639 60 8 703 2339 397109208 397110839 0.000000e+00 2636
17 TraesCS2A01G241400 chr1D 97.256 583 12 3 1 579 51877865 51877283 0.000000e+00 985
18 TraesCS2A01G241400 chr1D 94.492 581 30 2 1 579 260892316 260892896 0.000000e+00 894
19 TraesCS2A01G241400 chr4A 95.533 582 23 3 1 579 310730392 310729811 0.000000e+00 928


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 TraesCS2A01G241400 chr2A 335828027 335830419 2392 True 4420 4420 100.000 1 2393 1 chr2A.!!$R1 2392
1 TraesCS2A01G241400 chrUn 93410683 93412448 1765 False 3073 3073 98.131 579 2339 1 chrUn.!!$F1 1760
2 TraesCS2A01G241400 chr5D 503215400 503217165 1765 True 3061 3061 97.963 579 2342 1 chr5D.!!$R2 1763
3 TraesCS2A01G241400 chr5D 329121155 329122925 1770 False 2964 2964 96.900 575 2343 1 chr5D.!!$F3 1768
4 TraesCS2A01G241400 chr5D 6180155 6180737 582 True 985 985 97.256 1 579 1 chr5D.!!$R1 578
5 TraesCS2A01G241400 chr5D 503287508 503288093 585 False 965 965 96.587 1 579 1 chr5D.!!$F4 578
6 TraesCS2A01G241400 chr5D 120800081 120800659 578 False 952 952 96.373 3 579 1 chr5D.!!$F1 576
7 TraesCS2A01G241400 chr5D 167072143 167072726 583 False 929 929 95.548 1 579 1 chr5D.!!$F2 578
8 TraesCS2A01G241400 chr5D 512415693 512416234 541 True 918 918 97.417 43 579 1 chr5D.!!$R3 536
9 TraesCS2A01G241400 chr6D 168248720 168250487 1767 True 3051 3051 97.851 579 2342 1 chr6D.!!$R2 1763
10 TraesCS2A01G241400 chr6D 45510779 45511362 583 True 979 979 97.094 1 579 1 chr6D.!!$R1 578
11 TraesCS2A01G241400 chr2D 272794946 272796710 1764 False 3051 3051 97.905 579 2339 1 chr2D.!!$F1 1760
12 TraesCS2A01G241400 chr3A 672911061 672912824 1763 False 2972 2972 97.112 579 2339 1 chr3A.!!$F1 1760
13 TraesCS2A01G241400 chr6A 260117334 260119097 1763 False 2933 2933 96.719 579 2339 1 chr6A.!!$F1 1760
14 TraesCS2A01G241400 chr7A 352182865 352184620 1755 False 2687 2687 94.274 579 2339 1 chr7A.!!$F1 1760
15 TraesCS2A01G241400 chr1D 397109208 397110839 1631 False 2636 2636 95.790 703 2339 1 chr1D.!!$F2 1636
16 TraesCS2A01G241400 chr1D 51877283 51877865 582 True 985 985 97.256 1 579 1 chr1D.!!$R1 578
17 TraesCS2A01G241400 chr1D 260892316 260892896 580 False 894 894 94.492 1 579 1 chr1D.!!$F1 578
18 TraesCS2A01G241400 chr4A 310729811 310730392 581 True 928 928 95.533 1 579 1 chr4A.!!$R1 578

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
325 332 0.032017 CTACTCCCCTGCACCTAGGT 60.032 60.0 9.21 9.21 36.02 3.08 F
484 491 0.040646 TCCTAGTGGATCCGTGTGGT 59.959 55.0 7.39 0.00 37.46 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1251 1298 1.476488 GTGGCTGCCGAATAAACCAAT 59.524 47.619 14.98 0.0 0.0 3.16 R
2114 2177 2.200373 ATTGTTTGGAGGGGAAGTCG 57.800 50.000 0.00 0.0 0.0 4.18 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
131 135 3.445450 TGGCAAGTTGCTGTAAGTTTTCA 59.555 39.130 26.16 9.59 44.28 2.69
133 137 4.867608 GGCAAGTTGCTGTAAGTTTTCAAA 59.132 37.500 26.16 0.00 44.28 2.69
209 216 7.899178 AAAATTAAAATGGGTAAAAGCCGAG 57.101 32.000 0.00 0.00 38.98 4.63
210 217 6.844097 AATTAAAATGGGTAAAAGCCGAGA 57.156 33.333 0.00 0.00 38.98 4.04
211 218 6.844097 ATTAAAATGGGTAAAAGCCGAGAA 57.156 33.333 0.00 0.00 38.98 2.87
212 219 4.783764 AAAATGGGTAAAAGCCGAGAAG 57.216 40.909 0.00 0.00 38.98 2.85
213 220 3.434940 AATGGGTAAAAGCCGAGAAGT 57.565 42.857 0.00 0.00 38.98 3.01
214 221 2.943036 TGGGTAAAAGCCGAGAAGTT 57.057 45.000 0.00 0.00 38.98 2.66
215 222 3.217681 TGGGTAAAAGCCGAGAAGTTT 57.782 42.857 0.00 0.00 38.98 2.66
216 223 3.558033 TGGGTAAAAGCCGAGAAGTTTT 58.442 40.909 0.00 0.00 38.98 2.43
217 224 4.716794 TGGGTAAAAGCCGAGAAGTTTTA 58.283 39.130 0.00 0.00 38.98 1.52
218 225 5.318630 TGGGTAAAAGCCGAGAAGTTTTAT 58.681 37.500 0.00 0.00 38.98 1.40
219 226 6.474630 TGGGTAAAAGCCGAGAAGTTTTATA 58.525 36.000 0.00 0.00 38.98 0.98
220 227 7.114095 TGGGTAAAAGCCGAGAAGTTTTATAT 58.886 34.615 0.00 0.00 38.98 0.86
221 228 7.612633 TGGGTAAAAGCCGAGAAGTTTTATATT 59.387 33.333 0.00 0.00 38.98 1.28
222 229 8.464404 GGGTAAAAGCCGAGAAGTTTTATATTT 58.536 33.333 0.00 0.00 30.51 1.40
223 230 9.850628 GGTAAAAGCCGAGAAGTTTTATATTTT 57.149 29.630 0.00 0.00 30.51 1.82
278 285 7.573968 AATTCTTCTACATTGAATGGGTAGC 57.426 36.000 10.27 0.00 35.58 3.58
279 286 5.957771 TCTTCTACATTGAATGGGTAGCT 57.042 39.130 10.27 0.00 35.58 3.32
280 287 7.432148 TTCTTCTACATTGAATGGGTAGCTA 57.568 36.000 10.27 0.00 35.58 3.32
281 288 6.817184 TCTTCTACATTGAATGGGTAGCTAC 58.183 40.000 15.88 15.88 35.58 3.58
282 289 6.382859 TCTTCTACATTGAATGGGTAGCTACA 59.617 38.462 24.75 6.36 35.58 2.74
283 290 6.553953 TCTACATTGAATGGGTAGCTACAA 57.446 37.500 24.75 13.05 35.58 2.41
284 291 6.346096 TCTACATTGAATGGGTAGCTACAAC 58.654 40.000 24.75 16.87 35.58 3.32
285 292 4.917385 ACATTGAATGGGTAGCTACAACA 58.083 39.130 24.75 21.51 33.60 3.33
286 293 5.321102 ACATTGAATGGGTAGCTACAACAA 58.679 37.500 24.75 19.64 33.60 2.83
287 294 5.951747 ACATTGAATGGGTAGCTACAACAAT 59.048 36.000 24.75 20.69 32.35 2.71
288 295 7.116075 ACATTGAATGGGTAGCTACAACAATA 58.884 34.615 24.75 10.76 31.62 1.90
289 296 7.613801 ACATTGAATGGGTAGCTACAACAATAA 59.386 33.333 24.75 17.08 31.62 1.40
290 297 8.465999 CATTGAATGGGTAGCTACAACAATAAA 58.534 33.333 24.75 14.99 31.62 1.40
291 298 8.588290 TTGAATGGGTAGCTACAACAATAAAT 57.412 30.769 24.75 5.76 0.00 1.40
292 299 8.588290 TGAATGGGTAGCTACAACAATAAATT 57.412 30.769 24.75 13.04 0.00 1.82
293 300 9.030452 TGAATGGGTAGCTACAACAATAAATTT 57.970 29.630 24.75 12.43 0.00 1.82
294 301 9.301153 GAATGGGTAGCTACAACAATAAATTTG 57.699 33.333 24.75 0.00 0.00 2.32
295 302 7.164230 TGGGTAGCTACAACAATAAATTTGG 57.836 36.000 24.75 0.00 0.00 3.28
296 303 6.948886 TGGGTAGCTACAACAATAAATTTGGA 59.051 34.615 24.75 0.00 0.00 3.53
297 304 7.617723 TGGGTAGCTACAACAATAAATTTGGAT 59.382 33.333 24.75 0.00 0.00 3.41
298 305 8.135529 GGGTAGCTACAACAATAAATTTGGATC 58.864 37.037 24.75 1.31 0.00 3.36
299 306 8.682710 GGTAGCTACAACAATAAATTTGGATCA 58.317 33.333 24.75 0.00 0.00 2.92
300 307 9.722056 GTAGCTACAACAATAAATTTGGATCAG 57.278 33.333 19.15 0.00 0.00 2.90
301 308 7.260603 AGCTACAACAATAAATTTGGATCAGC 58.739 34.615 0.00 0.12 0.00 4.26
302 309 6.476706 GCTACAACAATAAATTTGGATCAGCC 59.523 38.462 0.00 0.00 37.10 4.85
303 310 6.610075 ACAACAATAAATTTGGATCAGCCT 57.390 33.333 0.00 0.00 37.63 4.58
304 311 7.008021 ACAACAATAAATTTGGATCAGCCTT 57.992 32.000 0.00 0.00 37.63 4.35
305 312 7.452562 ACAACAATAAATTTGGATCAGCCTTT 58.547 30.769 0.00 0.00 37.63 3.11
306 313 7.603784 ACAACAATAAATTTGGATCAGCCTTTC 59.396 33.333 0.00 0.00 37.63 2.62
307 314 7.486407 ACAATAAATTTGGATCAGCCTTTCT 57.514 32.000 0.00 0.00 37.63 2.52
308 315 8.593945 ACAATAAATTTGGATCAGCCTTTCTA 57.406 30.769 0.00 0.00 37.63 2.10
309 316 8.470002 ACAATAAATTTGGATCAGCCTTTCTAC 58.530 33.333 0.00 0.00 37.63 2.59
310 317 8.689972 CAATAAATTTGGATCAGCCTTTCTACT 58.310 33.333 0.00 0.00 37.63 2.57
311 318 6.765915 AAATTTGGATCAGCCTTTCTACTC 57.234 37.500 0.00 0.00 37.63 2.59
312 319 3.914426 TTGGATCAGCCTTTCTACTCC 57.086 47.619 0.00 0.00 37.63 3.85
313 320 2.119495 TGGATCAGCCTTTCTACTCCC 58.881 52.381 0.00 0.00 37.63 4.30
314 321 1.418264 GGATCAGCCTTTCTACTCCCC 59.582 57.143 0.00 0.00 0.00 4.81
315 322 2.403561 GATCAGCCTTTCTACTCCCCT 58.596 52.381 0.00 0.00 0.00 4.79
316 323 1.573108 TCAGCCTTTCTACTCCCCTG 58.427 55.000 0.00 0.00 0.00 4.45
317 324 0.107459 CAGCCTTTCTACTCCCCTGC 60.107 60.000 0.00 0.00 0.00 4.85
318 325 0.547712 AGCCTTTCTACTCCCCTGCA 60.548 55.000 0.00 0.00 0.00 4.41
319 326 0.393132 GCCTTTCTACTCCCCTGCAC 60.393 60.000 0.00 0.00 0.00 4.57
320 327 0.253327 CCTTTCTACTCCCCTGCACC 59.747 60.000 0.00 0.00 0.00 5.01
321 328 1.280457 CTTTCTACTCCCCTGCACCT 58.720 55.000 0.00 0.00 0.00 4.00
322 329 2.467880 CTTTCTACTCCCCTGCACCTA 58.532 52.381 0.00 0.00 0.00 3.08
323 330 2.160721 TTCTACTCCCCTGCACCTAG 57.839 55.000 0.00 0.00 0.00 3.02
324 331 0.261991 TCTACTCCCCTGCACCTAGG 59.738 60.000 7.41 7.41 37.59 3.02
325 332 0.032017 CTACTCCCCTGCACCTAGGT 60.032 60.000 9.21 9.21 36.02 3.08
326 333 0.416231 TACTCCCCTGCACCTAGGTT 59.584 55.000 13.15 0.00 36.02 3.50
327 334 1.201429 ACTCCCCTGCACCTAGGTTG 61.201 60.000 13.15 9.30 36.02 3.77
328 335 0.909610 CTCCCCTGCACCTAGGTTGA 60.910 60.000 13.15 0.00 36.02 3.18
329 336 0.909610 TCCCCTGCACCTAGGTTGAG 60.910 60.000 13.15 10.77 36.02 3.02
330 337 1.078143 CCCTGCACCTAGGTTGAGC 60.078 63.158 13.15 13.87 36.02 4.26
331 338 1.679311 CCTGCACCTAGGTTGAGCA 59.321 57.895 20.74 20.74 32.99 4.26
332 339 3.149899 CTGCACCTAGGTTGAGCAG 57.850 57.895 28.49 28.49 45.44 4.24
333 340 0.392193 CTGCACCTAGGTTGAGCAGG 60.392 60.000 31.35 19.30 46.55 4.85
334 341 1.127567 TGCACCTAGGTTGAGCAGGT 61.128 55.000 18.78 0.00 43.56 4.00
335 342 0.902531 GCACCTAGGTTGAGCAGGTA 59.097 55.000 13.15 0.00 40.77 3.08
336 343 1.405661 GCACCTAGGTTGAGCAGGTAC 60.406 57.143 13.15 0.00 40.77 3.34
337 344 1.207329 CACCTAGGTTGAGCAGGTACC 59.793 57.143 13.15 2.73 40.77 3.34
338 345 1.078989 ACCTAGGTTGAGCAGGTACCT 59.921 52.381 9.21 9.21 40.93 3.08
339 346 2.313945 ACCTAGGTTGAGCAGGTACCTA 59.686 50.000 15.80 0.00 40.93 3.08
340 347 3.245875 ACCTAGGTTGAGCAGGTACCTAA 60.246 47.826 15.80 1.83 42.36 2.69
341 348 3.773119 CCTAGGTTGAGCAGGTACCTAAA 59.227 47.826 15.80 4.27 42.36 1.85
342 349 3.983044 AGGTTGAGCAGGTACCTAAAG 57.017 47.619 15.80 3.39 40.42 1.85
343 350 2.572104 AGGTTGAGCAGGTACCTAAAGG 59.428 50.000 15.80 2.98 40.42 3.11
360 367 7.902920 CCTAAAGGTACCTACACAATACCTA 57.097 40.000 16.67 0.00 46.48 3.08
361 368 8.310122 CCTAAAGGTACCTACACAATACCTAA 57.690 38.462 16.67 0.00 46.48 2.69
362 369 8.200120 CCTAAAGGTACCTACACAATACCTAAC 58.800 40.741 16.67 0.00 46.48 2.34
363 370 6.550938 AAGGTACCTACACAATACCTAACC 57.449 41.667 16.67 0.00 46.48 2.85
364 371 5.592795 AGGTACCTACACAATACCTAACCA 58.407 41.667 14.41 0.00 45.56 3.67
365 372 5.423290 AGGTACCTACACAATACCTAACCAC 59.577 44.000 14.41 0.00 45.56 4.16
366 373 4.831674 ACCTACACAATACCTAACCACC 57.168 45.455 0.00 0.00 0.00 4.61
367 374 4.432316 ACCTACACAATACCTAACCACCT 58.568 43.478 0.00 0.00 0.00 4.00
368 375 5.592795 ACCTACACAATACCTAACCACCTA 58.407 41.667 0.00 0.00 0.00 3.08
369 376 6.024893 ACCTACACAATACCTAACCACCTAA 58.975 40.000 0.00 0.00 0.00 2.69
370 377 6.070596 ACCTACACAATACCTAACCACCTAAC 60.071 42.308 0.00 0.00 0.00 2.34
371 378 5.169992 ACACAATACCTAACCACCTAACC 57.830 43.478 0.00 0.00 0.00 2.85
372 379 4.019051 ACACAATACCTAACCACCTAACCC 60.019 45.833 0.00 0.00 0.00 4.11
373 380 4.226620 CACAATACCTAACCACCTAACCCT 59.773 45.833 0.00 0.00 0.00 4.34
374 381 5.426185 CACAATACCTAACCACCTAACCCTA 59.574 44.000 0.00 0.00 0.00 3.53
375 382 6.100714 CACAATACCTAACCACCTAACCCTAT 59.899 42.308 0.00 0.00 0.00 2.57
376 383 6.679750 ACAATACCTAACCACCTAACCCTATT 59.320 38.462 0.00 0.00 0.00 1.73
377 384 7.185120 ACAATACCTAACCACCTAACCCTATTT 59.815 37.037 0.00 0.00 0.00 1.40
378 385 7.776291 ATACCTAACCACCTAACCCTATTTT 57.224 36.000 0.00 0.00 0.00 1.82
379 386 6.473429 ACCTAACCACCTAACCCTATTTTT 57.527 37.500 0.00 0.00 0.00 1.94
380 387 6.250711 ACCTAACCACCTAACCCTATTTTTG 58.749 40.000 0.00 0.00 0.00 2.44
381 388 5.126545 CCTAACCACCTAACCCTATTTTTGC 59.873 44.000 0.00 0.00 0.00 3.68
382 389 4.397919 ACCACCTAACCCTATTTTTGCT 57.602 40.909 0.00 0.00 0.00 3.91
383 390 5.523883 ACCACCTAACCCTATTTTTGCTA 57.476 39.130 0.00 0.00 0.00 3.49
384 391 6.087276 ACCACCTAACCCTATTTTTGCTAT 57.913 37.500 0.00 0.00 0.00 2.97
385 392 6.499436 ACCACCTAACCCTATTTTTGCTATT 58.501 36.000 0.00 0.00 0.00 1.73
386 393 6.379988 ACCACCTAACCCTATTTTTGCTATTG 59.620 38.462 0.00 0.00 0.00 1.90
387 394 6.605594 CCACCTAACCCTATTTTTGCTATTGA 59.394 38.462 0.00 0.00 0.00 2.57
388 395 7.287696 CCACCTAACCCTATTTTTGCTATTGAT 59.712 37.037 0.00 0.00 0.00 2.57
389 396 9.349713 CACCTAACCCTATTTTTGCTATTGATA 57.650 33.333 0.00 0.00 0.00 2.15
390 397 9.930158 ACCTAACCCTATTTTTGCTATTGATAA 57.070 29.630 0.00 0.00 0.00 1.75
394 401 9.700831 AACCCTATTTTTGCTATTGATAAGAGT 57.299 29.630 0.00 0.00 0.00 3.24
395 402 9.125026 ACCCTATTTTTGCTATTGATAAGAGTG 57.875 33.333 0.00 0.00 0.00 3.51
396 403 8.078596 CCCTATTTTTGCTATTGATAAGAGTGC 58.921 37.037 0.00 0.00 0.00 4.40
397 404 8.844244 CCTATTTTTGCTATTGATAAGAGTGCT 58.156 33.333 0.00 0.00 0.00 4.40
483 490 2.896278 TCCTAGTGGATCCGTGTGG 58.104 57.895 7.39 7.26 37.46 4.17
484 491 0.040646 TCCTAGTGGATCCGTGTGGT 59.959 55.000 7.39 0.00 37.46 4.16
485 492 1.285667 TCCTAGTGGATCCGTGTGGTA 59.714 52.381 7.39 0.00 37.46 3.25
486 493 2.104967 CCTAGTGGATCCGTGTGGTAA 58.895 52.381 7.39 0.00 33.72 2.85
487 494 2.100916 CCTAGTGGATCCGTGTGGTAAG 59.899 54.545 7.39 0.00 33.72 2.34
488 495 0.902531 AGTGGATCCGTGTGGTAAGG 59.097 55.000 7.39 0.00 36.30 2.69
489 496 0.899720 GTGGATCCGTGTGGTAAGGA 59.100 55.000 7.39 0.00 41.32 3.36
490 497 1.276989 GTGGATCCGTGTGGTAAGGAA 59.723 52.381 7.39 0.00 40.43 3.36
491 498 1.979308 TGGATCCGTGTGGTAAGGAAA 59.021 47.619 7.39 0.00 40.43 3.13
492 499 2.372504 TGGATCCGTGTGGTAAGGAAAA 59.627 45.455 7.39 0.00 40.43 2.29
493 500 3.181442 TGGATCCGTGTGGTAAGGAAAAA 60.181 43.478 7.39 0.00 40.43 1.94
494 501 3.189910 GGATCCGTGTGGTAAGGAAAAAC 59.810 47.826 0.00 0.00 40.43 2.43
495 502 3.564053 TCCGTGTGGTAAGGAAAAACT 57.436 42.857 0.00 0.00 33.77 2.66
496 503 3.207778 TCCGTGTGGTAAGGAAAAACTG 58.792 45.455 0.00 0.00 33.77 3.16
497 504 2.292292 CCGTGTGGTAAGGAAAAACTGG 59.708 50.000 0.00 0.00 0.00 4.00
498 505 2.946990 CGTGTGGTAAGGAAAAACTGGT 59.053 45.455 0.00 0.00 0.00 4.00
499 506 4.128643 CGTGTGGTAAGGAAAAACTGGTA 58.871 43.478 0.00 0.00 0.00 3.25
500 507 4.575645 CGTGTGGTAAGGAAAAACTGGTAA 59.424 41.667 0.00 0.00 0.00 2.85
501 508 5.239963 CGTGTGGTAAGGAAAAACTGGTAAT 59.760 40.000 0.00 0.00 0.00 1.89
502 509 6.567132 CGTGTGGTAAGGAAAAACTGGTAATC 60.567 42.308 0.00 0.00 0.00 1.75
503 510 6.489022 GTGTGGTAAGGAAAAACTGGTAATCT 59.511 38.462 0.00 0.00 0.00 2.40
504 511 7.662669 GTGTGGTAAGGAAAAACTGGTAATCTA 59.337 37.037 0.00 0.00 0.00 1.98
505 512 8.387813 TGTGGTAAGGAAAAACTGGTAATCTAT 58.612 33.333 0.00 0.00 0.00 1.98
506 513 9.239551 GTGGTAAGGAAAAACTGGTAATCTATT 57.760 33.333 0.00 0.00 0.00 1.73
507 514 9.457436 TGGTAAGGAAAAACTGGTAATCTATTC 57.543 33.333 0.00 0.00 0.00 1.75
508 515 8.900781 GGTAAGGAAAAACTGGTAATCTATTCC 58.099 37.037 0.00 0.00 36.25 3.01
509 516 9.682465 GTAAGGAAAAACTGGTAATCTATTCCT 57.318 33.333 0.00 0.00 45.41 3.36
543 550 9.717942 ATCTTGGAGATTATGTAATGCTTACTC 57.282 33.333 7.33 0.00 32.41 2.59
544 551 8.928448 TCTTGGAGATTATGTAATGCTTACTCT 58.072 33.333 0.00 3.06 37.06 3.24
545 552 9.202273 CTTGGAGATTATGTAATGCTTACTCTC 57.798 37.037 0.00 10.88 37.06 3.20
546 553 8.250143 TGGAGATTATGTAATGCTTACTCTCA 57.750 34.615 16.05 0.00 36.31 3.27
547 554 8.704668 TGGAGATTATGTAATGCTTACTCTCAA 58.295 33.333 16.05 8.85 36.31 3.02
548 555 9.547753 GGAGATTATGTAATGCTTACTCTCAAA 57.452 33.333 16.05 4.92 36.31 2.69
555 562 9.683069 ATGTAATGCTTACTCTCAAACTTTTTG 57.317 29.630 7.33 0.00 37.06 2.44
556 563 8.682710 TGTAATGCTTACTCTCAAACTTTTTGT 58.317 29.630 7.33 0.00 37.06 2.83
557 564 9.516314 GTAATGCTTACTCTCAAACTTTTTGTT 57.484 29.630 0.00 0.00 35.39 2.83
590 597 9.661187 GTAGTGATATTCTTTACTTCGATCGAA 57.339 33.333 27.54 27.54 0.00 3.71
624 631 7.451566 ACATAGAATGCCACTCTTTAAAAAGGT 59.548 33.333 2.77 0.00 36.67 3.50
631 640 7.842982 TGCCACTCTTTAAAAAGGTAAAAAGT 58.157 30.769 2.77 0.00 36.67 2.66
999 1015 3.503800 AGGCGGGGAATAACCTTATTC 57.496 47.619 8.68 8.68 45.16 1.75
1104 1128 5.047802 TCCAACCGATCGTCTACTTAAGTTT 60.048 40.000 14.49 0.00 0.00 2.66
1251 1298 6.826668 TCGAGCATCTTATCCCATCTTAAAA 58.173 36.000 0.00 0.00 0.00 1.52
1270 1317 1.846007 ATTGGTTTATTCGGCAGCCA 58.154 45.000 13.30 0.00 0.00 4.75
1371 1422 2.086054 AGAAATTCAGACGCGAGCTT 57.914 45.000 15.93 0.00 0.00 3.74
1380 1431 2.430921 CGCGAGCTTGAGGACGTT 60.431 61.111 4.70 0.00 0.00 3.99
1615 1674 7.792364 TTCTGAAGGTCTACAGGAAGATAAA 57.208 36.000 0.00 0.00 35.20 1.40
1690 1749 9.046296 GGCTCGAATAGAAAAATAGAATCAGAA 57.954 33.333 0.00 0.00 0.00 3.02
1760 1819 7.359262 TCAAGTTCCGAAGTAATTACACATG 57.641 36.000 17.65 8.87 0.00 3.21
2073 2136 2.536761 AAAATTGTGGGTCGTCTCGA 57.463 45.000 0.00 0.00 0.00 4.04
2114 2177 4.554134 GCGCCGAATCTATTAAAAAGGGTC 60.554 45.833 0.00 0.00 0.00 4.46
2146 2209 4.162812 TCCAAACAATTCGCGCTAAAATC 58.837 39.130 5.56 0.00 0.00 2.17
2359 2436 8.771920 TGAAACTTTTCTTTCTTTTTCCTTCC 57.228 30.769 3.48 0.00 38.02 3.46
2360 2437 7.544217 TGAAACTTTTCTTTCTTTTTCCTTCCG 59.456 33.333 3.48 0.00 38.02 4.30
2361 2438 6.769134 ACTTTTCTTTCTTTTTCCTTCCGA 57.231 33.333 0.00 0.00 0.00 4.55
2362 2439 7.348080 ACTTTTCTTTCTTTTTCCTTCCGAT 57.652 32.000 0.00 0.00 0.00 4.18
2363 2440 8.459911 ACTTTTCTTTCTTTTTCCTTCCGATA 57.540 30.769 0.00 0.00 0.00 2.92
2364 2441 8.350722 ACTTTTCTTTCTTTTTCCTTCCGATAC 58.649 33.333 0.00 0.00 0.00 2.24
2365 2442 8.459911 TTTTCTTTCTTTTTCCTTCCGATACT 57.540 30.769 0.00 0.00 0.00 2.12
2366 2443 9.563748 TTTTCTTTCTTTTTCCTTCCGATACTA 57.436 29.630 0.00 0.00 0.00 1.82
2367 2444 9.563748 TTTCTTTCTTTTTCCTTCCGATACTAA 57.436 29.630 0.00 0.00 0.00 2.24
2368 2445 9.563748 TTCTTTCTTTTTCCTTCCGATACTAAA 57.436 29.630 0.00 0.00 0.00 1.85
2369 2446 9.563748 TCTTTCTTTTTCCTTCCGATACTAAAA 57.436 29.630 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
116 120 9.651913 AAAGATTTCTTTGAAAACTTACAGCAA 57.348 25.926 13.25 0.00 43.87 3.91
252 259 9.120538 GCTACCCATTCAATGTAGAAGAATTTA 57.879 33.333 0.00 0.00 35.13 1.40
253 260 7.836183 AGCTACCCATTCAATGTAGAAGAATTT 59.164 33.333 0.00 0.00 35.13 1.82
254 261 7.349598 AGCTACCCATTCAATGTAGAAGAATT 58.650 34.615 0.00 0.00 35.13 2.17
255 262 6.904626 AGCTACCCATTCAATGTAGAAGAAT 58.095 36.000 0.00 0.00 35.13 2.40
256 263 6.313519 AGCTACCCATTCAATGTAGAAGAA 57.686 37.500 0.00 0.00 35.13 2.52
257 264 5.957771 AGCTACCCATTCAATGTAGAAGA 57.042 39.130 0.00 0.00 35.13 2.87
258 265 6.582636 TGTAGCTACCCATTCAATGTAGAAG 58.417 40.000 21.01 0.00 35.13 2.85
259 266 6.553953 TGTAGCTACCCATTCAATGTAGAA 57.446 37.500 21.01 0.00 35.13 2.10
260 267 6.070481 TGTTGTAGCTACCCATTCAATGTAGA 60.070 38.462 21.01 0.00 35.13 2.59
261 268 6.112734 TGTTGTAGCTACCCATTCAATGTAG 58.887 40.000 21.01 0.00 36.02 2.74
262 269 6.056090 TGTTGTAGCTACCCATTCAATGTA 57.944 37.500 21.01 0.00 0.00 2.29
263 270 4.917385 TGTTGTAGCTACCCATTCAATGT 58.083 39.130 21.01 0.00 0.00 2.71
264 271 5.895636 TTGTTGTAGCTACCCATTCAATG 57.104 39.130 21.01 0.00 0.00 2.82
265 272 8.588290 TTTATTGTTGTAGCTACCCATTCAAT 57.412 30.769 21.01 20.97 0.00 2.57
266 273 8.588290 ATTTATTGTTGTAGCTACCCATTCAA 57.412 30.769 21.01 16.68 0.00 2.69
267 274 8.588290 AATTTATTGTTGTAGCTACCCATTCA 57.412 30.769 21.01 9.78 0.00 2.57
268 275 9.301153 CAAATTTATTGTTGTAGCTACCCATTC 57.699 33.333 21.01 7.50 0.00 2.67
269 276 8.257306 CCAAATTTATTGTTGTAGCTACCCATT 58.743 33.333 21.01 14.84 0.00 3.16
270 277 7.617723 TCCAAATTTATTGTTGTAGCTACCCAT 59.382 33.333 21.01 9.81 0.00 4.00
271 278 6.948886 TCCAAATTTATTGTTGTAGCTACCCA 59.051 34.615 21.01 14.36 0.00 4.51
272 279 7.399245 TCCAAATTTATTGTTGTAGCTACCC 57.601 36.000 21.01 11.95 0.00 3.69
273 280 8.682710 TGATCCAAATTTATTGTTGTAGCTACC 58.317 33.333 21.01 7.28 0.00 3.18
274 281 9.722056 CTGATCCAAATTTATTGTTGTAGCTAC 57.278 33.333 17.30 17.30 0.00 3.58
275 282 8.405531 GCTGATCCAAATTTATTGTTGTAGCTA 58.594 33.333 0.00 0.00 0.00 3.32
276 283 7.260603 GCTGATCCAAATTTATTGTTGTAGCT 58.739 34.615 0.00 0.00 0.00 3.32
277 284 6.476706 GGCTGATCCAAATTTATTGTTGTAGC 59.523 38.462 0.00 0.00 34.01 3.58
278 285 7.775120 AGGCTGATCCAAATTTATTGTTGTAG 58.225 34.615 0.00 0.00 37.29 2.74
279 286 7.716799 AGGCTGATCCAAATTTATTGTTGTA 57.283 32.000 0.00 0.00 37.29 2.41
280 287 6.610075 AGGCTGATCCAAATTTATTGTTGT 57.390 33.333 0.00 0.00 37.29 3.32
281 288 7.820872 AGAAAGGCTGATCCAAATTTATTGTTG 59.179 33.333 0.00 0.00 37.29 3.33
282 289 7.910584 AGAAAGGCTGATCCAAATTTATTGTT 58.089 30.769 0.00 0.00 37.29 2.83
283 290 7.486407 AGAAAGGCTGATCCAAATTTATTGT 57.514 32.000 0.00 0.00 37.29 2.71
284 291 8.689972 AGTAGAAAGGCTGATCCAAATTTATTG 58.310 33.333 0.00 0.00 37.29 1.90
285 292 8.829373 AGTAGAAAGGCTGATCCAAATTTATT 57.171 30.769 0.00 0.00 37.29 1.40
286 293 7.503902 GGAGTAGAAAGGCTGATCCAAATTTAT 59.496 37.037 0.00 0.00 37.29 1.40
287 294 6.828785 GGAGTAGAAAGGCTGATCCAAATTTA 59.171 38.462 0.00 0.00 37.29 1.40
288 295 5.654209 GGAGTAGAAAGGCTGATCCAAATTT 59.346 40.000 0.00 0.00 37.29 1.82
289 296 5.196695 GGAGTAGAAAGGCTGATCCAAATT 58.803 41.667 0.00 0.00 37.29 1.82
290 297 4.385754 GGGAGTAGAAAGGCTGATCCAAAT 60.386 45.833 0.00 0.00 35.40 2.32
291 298 3.054361 GGGAGTAGAAAGGCTGATCCAAA 60.054 47.826 0.00 0.00 35.40 3.28
292 299 2.505819 GGGAGTAGAAAGGCTGATCCAA 59.494 50.000 0.00 0.00 35.40 3.53
293 300 2.119495 GGGAGTAGAAAGGCTGATCCA 58.881 52.381 0.00 0.00 35.40 3.41
294 301 1.418264 GGGGAGTAGAAAGGCTGATCC 59.582 57.143 0.00 0.00 33.84 3.36
295 302 2.103941 CAGGGGAGTAGAAAGGCTGATC 59.896 54.545 0.00 0.00 0.00 2.92
296 303 2.122768 CAGGGGAGTAGAAAGGCTGAT 58.877 52.381 0.00 0.00 0.00 2.90
297 304 1.573108 CAGGGGAGTAGAAAGGCTGA 58.427 55.000 0.00 0.00 0.00 4.26
298 305 0.107459 GCAGGGGAGTAGAAAGGCTG 60.107 60.000 0.00 0.00 0.00 4.85
299 306 0.547712 TGCAGGGGAGTAGAAAGGCT 60.548 55.000 0.00 0.00 0.00 4.58
300 307 0.393132 GTGCAGGGGAGTAGAAAGGC 60.393 60.000 0.00 0.00 0.00 4.35
301 308 0.253327 GGTGCAGGGGAGTAGAAAGG 59.747 60.000 0.00 0.00 0.00 3.11
302 309 1.280457 AGGTGCAGGGGAGTAGAAAG 58.720 55.000 0.00 0.00 0.00 2.62
303 310 2.467880 CTAGGTGCAGGGGAGTAGAAA 58.532 52.381 0.00 0.00 0.00 2.52
304 311 1.343075 CCTAGGTGCAGGGGAGTAGAA 60.343 57.143 0.00 0.00 31.47 2.10
305 312 0.261991 CCTAGGTGCAGGGGAGTAGA 59.738 60.000 0.00 0.00 31.47 2.59
306 313 0.032017 ACCTAGGTGCAGGGGAGTAG 60.032 60.000 15.42 0.00 40.29 2.57
307 314 0.416231 AACCTAGGTGCAGGGGAGTA 59.584 55.000 17.14 0.00 40.29 2.59
308 315 1.161113 AACCTAGGTGCAGGGGAGT 59.839 57.895 17.14 0.00 40.29 3.85
309 316 0.909610 TCAACCTAGGTGCAGGGGAG 60.910 60.000 17.14 0.00 40.29 4.30
310 317 0.909610 CTCAACCTAGGTGCAGGGGA 60.910 60.000 17.14 5.90 40.29 4.81
311 318 1.604378 CTCAACCTAGGTGCAGGGG 59.396 63.158 17.14 1.64 40.29 4.79
312 319 1.078143 GCTCAACCTAGGTGCAGGG 60.078 63.158 17.14 9.98 40.29 4.45
313 320 0.392193 CTGCTCAACCTAGGTGCAGG 60.392 60.000 31.35 19.30 44.95 4.85
314 321 3.149899 CTGCTCAACCTAGGTGCAG 57.850 57.895 28.49 28.49 43.71 4.41
315 322 1.127567 ACCTGCTCAACCTAGGTGCA 61.128 55.000 20.74 20.74 42.95 4.57
316 323 0.902531 TACCTGCTCAACCTAGGTGC 59.097 55.000 17.14 15.48 44.22 5.01
317 324 1.207329 GGTACCTGCTCAACCTAGGTG 59.793 57.143 17.14 10.04 44.22 4.00
318 325 1.078989 AGGTACCTGCTCAACCTAGGT 59.921 52.381 15.42 9.21 46.13 3.08
319 326 1.867363 AGGTACCTGCTCAACCTAGG 58.133 55.000 15.42 7.41 41.86 3.02
320 327 4.141914 CCTTTAGGTACCTGCTCAACCTAG 60.142 50.000 25.33 5.17 44.52 3.02
321 328 3.773119 CCTTTAGGTACCTGCTCAACCTA 59.227 47.826 25.33 0.00 41.86 3.08
322 329 2.572104 CCTTTAGGTACCTGCTCAACCT 59.428 50.000 25.33 0.00 45.53 3.50
323 330 2.987232 CCTTTAGGTACCTGCTCAACC 58.013 52.381 25.33 0.00 0.00 3.77
336 343 6.803366 AGGTATTGTGTAGGTACCTTTAGG 57.197 41.667 22.11 0.00 44.34 2.69
337 344 8.200120 GGTTAGGTATTGTGTAGGTACCTTTAG 58.800 40.741 22.11 0.00 44.34 1.85
338 345 7.677745 TGGTTAGGTATTGTGTAGGTACCTTTA 59.322 37.037 22.11 6.72 44.34 1.85
339 346 6.501453 TGGTTAGGTATTGTGTAGGTACCTTT 59.499 38.462 22.11 0.00 44.34 3.11
340 347 6.024893 TGGTTAGGTATTGTGTAGGTACCTT 58.975 40.000 22.11 2.80 44.34 3.50
342 349 5.395657 GGTGGTTAGGTATTGTGTAGGTACC 60.396 48.000 2.73 2.73 38.49 3.34
343 350 5.423290 AGGTGGTTAGGTATTGTGTAGGTAC 59.577 44.000 0.00 0.00 0.00 3.34
344 351 5.592795 AGGTGGTTAGGTATTGTGTAGGTA 58.407 41.667 0.00 0.00 0.00 3.08
345 352 4.432316 AGGTGGTTAGGTATTGTGTAGGT 58.568 43.478 0.00 0.00 0.00 3.08
346 353 6.343703 GTTAGGTGGTTAGGTATTGTGTAGG 58.656 44.000 0.00 0.00 0.00 3.18
347 354 6.343703 GGTTAGGTGGTTAGGTATTGTGTAG 58.656 44.000 0.00 0.00 0.00 2.74
348 355 5.189539 GGGTTAGGTGGTTAGGTATTGTGTA 59.810 44.000 0.00 0.00 0.00 2.90
349 356 4.019051 GGGTTAGGTGGTTAGGTATTGTGT 60.019 45.833 0.00 0.00 0.00 3.72
350 357 4.226620 AGGGTTAGGTGGTTAGGTATTGTG 59.773 45.833 0.00 0.00 0.00 3.33
351 358 4.441757 AGGGTTAGGTGGTTAGGTATTGT 58.558 43.478 0.00 0.00 0.00 2.71
352 359 6.758806 ATAGGGTTAGGTGGTTAGGTATTG 57.241 41.667 0.00 0.00 0.00 1.90
353 360 7.776291 AAATAGGGTTAGGTGGTTAGGTATT 57.224 36.000 0.00 0.00 0.00 1.89
354 361 7.776291 AAAATAGGGTTAGGTGGTTAGGTAT 57.224 36.000 0.00 0.00 0.00 2.73
355 362 7.404481 CAAAAATAGGGTTAGGTGGTTAGGTA 58.596 38.462 0.00 0.00 0.00 3.08
356 363 6.250711 CAAAAATAGGGTTAGGTGGTTAGGT 58.749 40.000 0.00 0.00 0.00 3.08
357 364 5.126545 GCAAAAATAGGGTTAGGTGGTTAGG 59.873 44.000 0.00 0.00 0.00 2.69
358 365 5.949952 AGCAAAAATAGGGTTAGGTGGTTAG 59.050 40.000 0.00 0.00 0.00 2.34
359 366 5.894653 AGCAAAAATAGGGTTAGGTGGTTA 58.105 37.500 0.00 0.00 0.00 2.85
360 367 4.747583 AGCAAAAATAGGGTTAGGTGGTT 58.252 39.130 0.00 0.00 0.00 3.67
361 368 4.397919 AGCAAAAATAGGGTTAGGTGGT 57.602 40.909 0.00 0.00 0.00 4.16
362 369 6.605594 TCAATAGCAAAAATAGGGTTAGGTGG 59.394 38.462 0.00 0.00 0.00 4.61
363 370 7.639113 TCAATAGCAAAAATAGGGTTAGGTG 57.361 36.000 0.00 0.00 0.00 4.00
364 371 9.930158 TTATCAATAGCAAAAATAGGGTTAGGT 57.070 29.630 0.00 0.00 0.00 3.08
368 375 9.700831 ACTCTTATCAATAGCAAAAATAGGGTT 57.299 29.630 0.00 0.00 0.00 4.11
369 376 9.125026 CACTCTTATCAATAGCAAAAATAGGGT 57.875 33.333 0.00 0.00 0.00 4.34
370 377 8.078596 GCACTCTTATCAATAGCAAAAATAGGG 58.921 37.037 0.00 0.00 0.00 3.53
371 378 8.844244 AGCACTCTTATCAATAGCAAAAATAGG 58.156 33.333 0.00 0.00 0.00 2.57
465 472 0.040646 ACCACACGGATCCACTAGGA 59.959 55.000 13.41 0.00 41.84 2.94
466 473 1.771565 TACCACACGGATCCACTAGG 58.228 55.000 13.41 10.45 35.59 3.02
467 474 2.100916 CCTTACCACACGGATCCACTAG 59.899 54.545 13.41 0.00 35.59 2.57
468 475 2.104967 CCTTACCACACGGATCCACTA 58.895 52.381 13.41 0.00 35.59 2.74
469 476 0.902531 CCTTACCACACGGATCCACT 59.097 55.000 13.41 0.00 35.59 4.00
470 477 0.899720 TCCTTACCACACGGATCCAC 59.100 55.000 13.41 0.00 35.59 4.02
471 478 1.646912 TTCCTTACCACACGGATCCA 58.353 50.000 13.41 0.00 35.59 3.41
472 479 2.773993 TTTCCTTACCACACGGATCC 57.226 50.000 0.00 0.00 35.59 3.36
473 480 4.070009 AGTTTTTCCTTACCACACGGATC 58.930 43.478 0.00 0.00 35.59 3.36
474 481 3.818773 CAGTTTTTCCTTACCACACGGAT 59.181 43.478 0.00 0.00 35.59 4.18
475 482 3.207778 CAGTTTTTCCTTACCACACGGA 58.792 45.455 0.00 0.00 35.59 4.69
476 483 2.292292 CCAGTTTTTCCTTACCACACGG 59.708 50.000 0.00 0.00 38.77 4.94
477 484 2.946990 ACCAGTTTTTCCTTACCACACG 59.053 45.455 0.00 0.00 0.00 4.49
478 485 6.489022 AGATTACCAGTTTTTCCTTACCACAC 59.511 38.462 0.00 0.00 0.00 3.82
479 486 6.607019 AGATTACCAGTTTTTCCTTACCACA 58.393 36.000 0.00 0.00 0.00 4.17
480 487 8.803397 ATAGATTACCAGTTTTTCCTTACCAC 57.197 34.615 0.00 0.00 0.00 4.16
481 488 9.457436 GAATAGATTACCAGTTTTTCCTTACCA 57.543 33.333 0.00 0.00 0.00 3.25
482 489 8.900781 GGAATAGATTACCAGTTTTTCCTTACC 58.099 37.037 0.00 0.00 0.00 2.85
483 490 9.682465 AGGAATAGATTACCAGTTTTTCCTTAC 57.318 33.333 0.00 0.00 38.81 2.34
531 538 9.516314 AACAAAAAGTTTGAGAGTAAGCATTAC 57.484 29.630 7.68 0.00 44.43 1.89
561 568 9.953697 GATCGAAGTAAAGAATATCACTACTGT 57.046 33.333 0.00 0.00 0.00 3.55
562 569 9.108449 CGATCGAAGTAAAGAATATCACTACTG 57.892 37.037 10.26 0.00 0.00 2.74
563 570 9.053840 TCGATCGAAGTAAAGAATATCACTACT 57.946 33.333 16.99 0.00 0.00 2.57
564 571 9.661187 TTCGATCGAAGTAAAGAATATCACTAC 57.339 33.333 25.96 0.00 0.00 2.73
566 573 9.751542 ATTTCGATCGAAGTAAAGAATATCACT 57.248 29.630 27.68 0.00 35.38 3.41
572 579 9.542462 TCCAATATTTCGATCGAAGTAAAGAAT 57.458 29.630 29.18 20.64 35.38 2.40
573 580 8.814235 GTCCAATATTTCGATCGAAGTAAAGAA 58.186 33.333 29.18 15.88 35.38 2.52
576 583 8.657074 ATGTCCAATATTTCGATCGAAGTAAA 57.343 30.769 29.18 17.51 35.38 2.01
590 597 6.845908 AGAGTGGCATTCTATGTCCAATATT 58.154 36.000 11.16 0.00 37.89 1.28
624 631 7.115805 CGTGTCACAGCTGATTACTACTTTTTA 59.884 37.037 23.35 0.00 0.00 1.52
631 640 4.776795 TTCGTGTCACAGCTGATTACTA 57.223 40.909 23.35 3.20 0.00 1.82
786 796 8.924511 ATATGTTCCTTTCCATTATGAATCGT 57.075 30.769 0.00 0.00 0.00 3.73
1104 1128 5.895636 TTTGTGCTTTGAAAACTCTCTCA 57.104 34.783 0.00 0.00 0.00 3.27
1251 1298 1.476488 GTGGCTGCCGAATAAACCAAT 59.524 47.619 14.98 0.00 0.00 3.16
1270 1317 9.646522 AAAATCCCTATAATGAGTAGCATTTGT 57.353 29.630 0.00 0.00 44.68 2.83
1371 1422 2.222885 TGGGGAAACAACGTCCTCA 58.777 52.632 0.00 0.00 43.67 3.86
1690 1749 9.661563 TTATGTGTAATTACTTCGGAACTTGAT 57.338 29.630 16.33 0.00 0.00 2.57
1760 1819 9.422196 CGTATCGATTTCTTTTTGGATTTCTAC 57.578 33.333 1.71 0.00 0.00 2.59
2073 2136 2.393764 CGCGTGCAATTTCTTTTCCTT 58.606 42.857 0.00 0.00 0.00 3.36
2114 2177 2.200373 ATTGTTTGGAGGGGAAGTCG 57.800 50.000 0.00 0.00 0.00 4.18
2146 2209 5.319139 CGAATTGGATAGCAGCAATAATCG 58.681 41.667 0.00 0.00 0.00 3.34
2339 2416 8.568794 AGTATCGGAAGGAAAAAGAAAGAAAAG 58.431 33.333 0.00 0.00 0.00 2.27


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

AutoCloner maintained by Alex Coulton.