Multiple sequence alignment - TraesCS3B01G286000

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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 TraesCS3B01G286000 chr3B 100.000 2844 0 0 1 2844 457635491 457638334 0.000000e+00 5252.0
1 TraesCS3B01G286000 chr3B 97.619 42 1 0 2062 2103 457637388 457637429 3.930000e-09 73.1
2 TraesCS3B01G286000 chr2B 97.323 1457 21 9 564 2019 629108934 629110373 0.000000e+00 2459.0
3 TraesCS3B01G286000 chr2B 98.838 1033 12 0 912 1944 90434378 90435410 0.000000e+00 1842.0
4 TraesCS3B01G286000 chr2B 98.352 728 12 0 2117 2844 629112041 629112768 0.000000e+00 1279.0
5 TraesCS3B01G286000 chr2B 97.290 369 7 2 564 929 90434083 90434451 8.650000e-175 623.0
6 TraesCS3B01G286000 chr1A 95.893 1461 31 19 562 2019 485328195 485329629 0.000000e+00 2338.0
7 TraesCS3B01G286000 chr1A 99.097 1108 10 0 912 2019 507990171 507991278 0.000000e+00 1991.0
8 TraesCS3B01G286000 chr1A 98.764 728 9 0 2117 2844 485331286 485332013 0.000000e+00 1295.0
9 TraesCS3B01G286000 chr1A 97.003 367 10 1 564 929 507989878 507990244 1.450000e-172 616.0
10 TraesCS3B01G286000 chr5A 94.715 1457 38 18 564 2019 666315906 666317324 0.000000e+00 2228.0
11 TraesCS3B01G286000 chr5B 94.441 1457 42 18 564 2019 448586418 448587836 0.000000e+00 2206.0
12 TraesCS3B01G286000 chr5B 98.626 728 10 0 2117 2844 448589504 448590231 0.000000e+00 1290.0
13 TraesCS3B01G286000 chr7A 94.376 1458 43 18 563 2019 705281554 705282973 0.000000e+00 2202.0
14 TraesCS3B01G286000 chr7A 97.069 1126 15 1 912 2019 556141555 556140430 0.000000e+00 1881.0
15 TraesCS3B01G286000 chr7A 99.176 728 6 0 2117 2844 705284640 705285367 0.000000e+00 1312.0
16 TraesCS3B01G286000 chr7A 97.665 728 14 1 2117 2844 345264401 345265125 0.000000e+00 1247.0
17 TraesCS3B01G286000 chr7A 96.486 370 11 2 561 929 556141850 556141482 6.740000e-171 610.0
18 TraesCS3B01G286000 chr1B 99.188 1108 9 0 912 2019 30530221 30531328 0.000000e+00 1997.0
19 TraesCS3B01G286000 chr1B 98.352 728 12 0 2117 2844 30532977 30533704 0.000000e+00 1279.0
20 TraesCS3B01G286000 chr1B 97.019 369 10 1 562 929 30529926 30530294 1.120000e-173 619.0
21 TraesCS3B01G286000 chr4A 99.097 1108 9 1 912 2019 3253221 3254327 0.000000e+00 1989.0
22 TraesCS3B01G286000 chr4A 98.626 728 10 0 2117 2844 3255978 3256705 0.000000e+00 1290.0
23 TraesCS3B01G286000 chr4A 98.352 728 9 1 2117 2844 705569745 705569021 0.000000e+00 1275.0
24 TraesCS3B01G286000 chr4A 97.035 371 10 1 560 929 3252924 3253294 8.650000e-175 623.0
25 TraesCS3B01G286000 chr3A 97.390 728 16 1 2117 2844 11580262 11580986 0.000000e+00 1236.0
26 TraesCS3B01G286000 chr3A 92.857 574 15 10 1 553 475306089 475306657 0.000000e+00 809.0
27 TraesCS3B01G286000 chr3D 91.624 585 15 12 1 562 356624333 356624906 0.000000e+00 778.0
28 TraesCS3B01G286000 chrUn 90.182 275 23 3 1 275 2669229 2669499 3.480000e-94 355.0
29 TraesCS3B01G286000 chr1D 93.191 235 16 0 1 235 16504871 16504637 2.100000e-91 346.0
30 TraesCS3B01G286000 chr4B 95.556 45 2 0 2062 2106 134585361 134585317 3.930000e-09 73.1


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 TraesCS3B01G286000 chr3B 457635491 457638334 2843 False 2662.550000 5252 98.809500 1 2844 2 chr3B.!!$F1 2843
1 TraesCS3B01G286000 chr2B 629108934 629112768 3834 False 1869.000000 2459 97.837500 564 2844 2 chr2B.!!$F2 2280
2 TraesCS3B01G286000 chr2B 90434083 90435410 1327 False 1232.500000 1842 98.064000 564 1944 2 chr2B.!!$F1 1380
3 TraesCS3B01G286000 chr1A 485328195 485332013 3818 False 1816.500000 2338 97.328500 562 2844 2 chr1A.!!$F1 2282
4 TraesCS3B01G286000 chr1A 507989878 507991278 1400 False 1303.500000 1991 98.050000 564 2019 2 chr1A.!!$F2 1455
5 TraesCS3B01G286000 chr5A 666315906 666317324 1418 False 2228.000000 2228 94.715000 564 2019 1 chr5A.!!$F1 1455
6 TraesCS3B01G286000 chr5B 448586418 448590231 3813 False 1748.000000 2206 96.533500 564 2844 2 chr5B.!!$F1 2280
7 TraesCS3B01G286000 chr7A 705281554 705285367 3813 False 1757.000000 2202 96.776000 563 2844 2 chr7A.!!$F2 2281
8 TraesCS3B01G286000 chr7A 345264401 345265125 724 False 1247.000000 1247 97.665000 2117 2844 1 chr7A.!!$F1 727
9 TraesCS3B01G286000 chr7A 556140430 556141850 1420 True 1245.500000 1881 96.777500 561 2019 2 chr7A.!!$R1 1458
10 TraesCS3B01G286000 chr1B 30529926 30533704 3778 False 1298.333333 1997 98.186333 562 2844 3 chr1B.!!$F1 2282
11 TraesCS3B01G286000 chr4A 3252924 3256705 3781 False 1300.666667 1989 98.252667 560 2844 3 chr4A.!!$F1 2284
12 TraesCS3B01G286000 chr4A 705569021 705569745 724 True 1275.000000 1275 98.352000 2117 2844 1 chr4A.!!$R1 727
13 TraesCS3B01G286000 chr3A 11580262 11580986 724 False 1236.000000 1236 97.390000 2117 2844 1 chr3A.!!$F1 727
14 TraesCS3B01G286000 chr3A 475306089 475306657 568 False 809.000000 809 92.857000 1 553 1 chr3A.!!$F2 552
15 TraesCS3B01G286000 chr3D 356624333 356624906 573 False 778.000000 778 91.624000 1 562 1 chr3D.!!$F1 561

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
298 299 0.029300 CGACTGTGTTGGCAACTTGG 59.971 55.0 28.71 19.67 37.61 3.61 F
554 555 0.032952 TTTGTTCGCGAGCTGGTAGT 59.967 50.0 23.51 0.00 0.00 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1790 1978 0.723414 CCATACAACAGTGCAGAGCG 59.277 55.000 0.00 0.00 0.0 5.03 R
2291 4132 3.142028 AGGAGGGAAGCTAGCTCTTATCT 59.858 47.826 19.65 11.28 0.0 1.98 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
175 176 2.280524 TCGGTGGCCTTGTTGTCG 60.281 61.111 3.32 0.00 0.00 4.35
258 259 0.031616 GACTCCCCCTCCATCTCACT 60.032 60.000 0.00 0.00 0.00 3.41
259 260 0.326048 ACTCCCCCTCCATCTCACTG 60.326 60.000 0.00 0.00 0.00 3.66
264 265 0.755686 CCCTCCATCTCACTGGCTAC 59.244 60.000 0.00 0.00 36.16 3.58
267 268 2.114616 CTCCATCTCACTGGCTACCTT 58.885 52.381 0.00 0.00 36.16 3.50
268 269 2.503356 CTCCATCTCACTGGCTACCTTT 59.497 50.000 0.00 0.00 36.16 3.11
269 270 2.237143 TCCATCTCACTGGCTACCTTTG 59.763 50.000 0.00 0.00 36.16 2.77
270 271 2.012673 CATCTCACTGGCTACCTTTGC 58.987 52.381 0.00 0.00 0.00 3.68
271 272 1.352083 TCTCACTGGCTACCTTTGCT 58.648 50.000 0.00 0.00 0.00 3.91
272 273 1.002430 TCTCACTGGCTACCTTTGCTG 59.998 52.381 0.00 0.00 0.00 4.41
275 276 0.607489 ACTGGCTACCTTTGCTGCTG 60.607 55.000 0.00 0.00 0.00 4.41
276 277 1.930908 CTGGCTACCTTTGCTGCTGC 61.931 60.000 8.89 8.89 40.20 5.25
277 278 1.676967 GGCTACCTTTGCTGCTGCT 60.677 57.895 17.00 0.00 40.48 4.24
278 279 0.392998 GGCTACCTTTGCTGCTGCTA 60.393 55.000 17.00 6.36 40.48 3.49
279 280 0.729690 GCTACCTTTGCTGCTGCTAC 59.270 55.000 17.00 0.00 40.48 3.58
280 281 1.002366 CTACCTTTGCTGCTGCTACG 58.998 55.000 17.00 6.83 40.48 3.51
281 282 0.606096 TACCTTTGCTGCTGCTACGA 59.394 50.000 17.00 0.00 40.48 3.43
282 283 0.951040 ACCTTTGCTGCTGCTACGAC 60.951 55.000 17.00 0.00 40.48 4.34
283 284 0.671781 CCTTTGCTGCTGCTACGACT 60.672 55.000 17.00 0.00 40.48 4.18
284 285 0.441533 CTTTGCTGCTGCTACGACTG 59.558 55.000 17.00 0.00 40.48 3.51
285 286 0.249868 TTTGCTGCTGCTACGACTGT 60.250 50.000 17.00 0.00 40.48 3.55
286 287 0.945743 TTGCTGCTGCTACGACTGTG 60.946 55.000 17.00 0.00 40.48 3.66
287 288 1.373497 GCTGCTGCTACGACTGTGT 60.373 57.895 8.53 0.00 36.03 3.72
288 289 0.946221 GCTGCTGCTACGACTGTGTT 60.946 55.000 8.53 0.00 36.03 3.32
289 290 0.786581 CTGCTGCTACGACTGTGTTG 59.213 55.000 0.00 0.00 0.00 3.33
290 291 0.599991 TGCTGCTACGACTGTGTTGG 60.600 55.000 0.00 0.00 0.00 3.77
291 292 1.901650 GCTGCTACGACTGTGTTGGC 61.902 60.000 0.00 0.00 0.00 4.52
292 293 0.599991 CTGCTACGACTGTGTTGGCA 60.600 55.000 0.00 0.00 0.00 4.92
293 294 0.179070 TGCTACGACTGTGTTGGCAA 60.179 50.000 0.00 0.00 0.00 4.52
294 295 0.234884 GCTACGACTGTGTTGGCAAC 59.765 55.000 23.12 23.12 0.00 4.17
295 296 1.865865 CTACGACTGTGTTGGCAACT 58.134 50.000 28.71 10.66 37.61 3.16
296 297 2.210116 CTACGACTGTGTTGGCAACTT 58.790 47.619 28.71 12.16 37.61 2.66
297 298 0.732571 ACGACTGTGTTGGCAACTTG 59.267 50.000 28.71 20.06 37.61 3.16
298 299 0.029300 CGACTGTGTTGGCAACTTGG 59.971 55.000 28.71 19.67 37.61 3.61
299 300 1.102978 GACTGTGTTGGCAACTTGGT 58.897 50.000 28.71 22.27 37.61 3.67
300 301 0.817013 ACTGTGTTGGCAACTTGGTG 59.183 50.000 28.71 16.71 37.61 4.17
301 302 0.817013 CTGTGTTGGCAACTTGGTGT 59.183 50.000 28.71 0.00 37.61 4.16
302 303 0.529833 TGTGTTGGCAACTTGGTGTG 59.470 50.000 28.71 0.00 37.61 3.82
303 304 0.530288 GTGTTGGCAACTTGGTGTGT 59.470 50.000 28.71 0.00 37.61 3.72
304 305 1.746220 GTGTTGGCAACTTGGTGTGTA 59.254 47.619 28.71 4.58 37.61 2.90
305 306 2.164624 GTGTTGGCAACTTGGTGTGTAA 59.835 45.455 28.71 3.84 37.61 2.41
306 307 3.027412 TGTTGGCAACTTGGTGTGTAAT 58.973 40.909 28.71 0.00 37.61 1.89
307 308 3.181482 TGTTGGCAACTTGGTGTGTAATG 60.181 43.478 28.71 0.00 37.61 1.90
308 309 1.339610 TGGCAACTTGGTGTGTAATGC 59.660 47.619 0.00 0.00 37.61 3.56
309 310 1.339610 GGCAACTTGGTGTGTAATGCA 59.660 47.619 0.00 0.00 32.11 3.96
310 311 2.607771 GGCAACTTGGTGTGTAATGCAG 60.608 50.000 0.00 0.00 32.11 4.41
311 312 2.034558 GCAACTTGGTGTGTAATGCAGT 59.965 45.455 0.00 0.00 31.16 4.40
312 313 3.252215 GCAACTTGGTGTGTAATGCAGTA 59.748 43.478 0.00 0.00 31.16 2.74
313 314 4.783242 CAACTTGGTGTGTAATGCAGTAC 58.217 43.478 17.11 17.11 0.00 2.73
314 315 4.079980 ACTTGGTGTGTAATGCAGTACA 57.920 40.909 22.18 22.18 0.00 2.90
315 316 4.065088 ACTTGGTGTGTAATGCAGTACAG 58.935 43.478 25.99 15.72 34.69 2.74
316 317 3.762407 TGGTGTGTAATGCAGTACAGT 57.238 42.857 25.99 0.00 34.69 3.55
317 318 3.659786 TGGTGTGTAATGCAGTACAGTC 58.340 45.455 25.99 19.93 34.69 3.51
318 319 3.323691 TGGTGTGTAATGCAGTACAGTCT 59.676 43.478 25.99 0.00 34.69 3.24
319 320 3.927142 GGTGTGTAATGCAGTACAGTCTC 59.073 47.826 25.99 15.11 34.69 3.36
320 321 4.556233 GTGTGTAATGCAGTACAGTCTCA 58.444 43.478 25.99 17.39 34.69 3.27
321 322 4.623167 GTGTGTAATGCAGTACAGTCTCAG 59.377 45.833 25.99 0.00 34.69 3.35
322 323 3.614616 GTGTAATGCAGTACAGTCTCAGC 59.385 47.826 25.99 9.81 34.69 4.26
323 324 2.001812 AATGCAGTACAGTCTCAGCG 57.998 50.000 0.00 0.00 0.00 5.18
324 325 0.174389 ATGCAGTACAGTCTCAGCGG 59.826 55.000 0.00 0.00 0.00 5.52
325 326 1.807573 GCAGTACAGTCTCAGCGGC 60.808 63.158 0.00 0.00 0.00 6.53
326 327 1.515088 CAGTACAGTCTCAGCGGCG 60.515 63.158 0.51 0.51 0.00 6.46
327 328 2.881352 GTACAGTCTCAGCGGCGC 60.881 66.667 26.86 26.86 0.00 6.53
328 329 4.476410 TACAGTCTCAGCGGCGCG 62.476 66.667 27.59 20.84 0.00 6.86
336 337 4.907034 CAGCGGCGCGTCGAGTAT 62.907 66.667 39.63 16.35 0.00 2.12
337 338 3.274586 AGCGGCGCGTCGAGTATA 61.275 61.111 39.63 0.00 0.00 1.47
338 339 2.126965 GCGGCGCGTCGAGTATAT 60.127 61.111 39.63 0.00 0.00 0.86
339 340 1.133253 GCGGCGCGTCGAGTATATA 59.867 57.895 39.63 0.00 0.00 0.86
340 341 0.247974 GCGGCGCGTCGAGTATATAT 60.248 55.000 39.63 0.00 0.00 0.86
341 342 1.004610 GCGGCGCGTCGAGTATATATA 60.005 52.381 39.63 0.00 0.00 0.86
342 343 2.888951 CGGCGCGTCGAGTATATATAG 58.111 52.381 32.09 0.00 0.00 1.31
343 344 2.537214 CGGCGCGTCGAGTATATATAGA 59.463 50.000 32.09 0.00 0.00 1.98
344 345 3.361820 CGGCGCGTCGAGTATATATAGAG 60.362 52.174 32.09 0.00 0.00 2.43
345 346 3.533919 GCGCGTCGAGTATATATAGAGC 58.466 50.000 8.43 0.00 0.00 4.09
346 347 3.001026 GCGCGTCGAGTATATATAGAGCA 59.999 47.826 8.43 0.00 0.00 4.26
347 348 4.753278 CGCGTCGAGTATATATAGAGCAG 58.247 47.826 0.00 0.00 0.00 4.24
348 349 4.520078 GCGTCGAGTATATATAGAGCAGC 58.480 47.826 0.00 0.00 0.00 5.25
349 350 4.553156 GCGTCGAGTATATATAGAGCAGCC 60.553 50.000 0.00 0.00 0.00 4.85
350 351 4.318192 CGTCGAGTATATATAGAGCAGCCG 60.318 50.000 0.00 0.00 0.00 5.52
351 352 4.024725 GTCGAGTATATATAGAGCAGCCGG 60.025 50.000 0.00 0.00 0.00 6.13
352 353 4.127907 CGAGTATATATAGAGCAGCCGGA 58.872 47.826 5.05 0.00 0.00 5.14
353 354 4.212425 CGAGTATATATAGAGCAGCCGGAG 59.788 50.000 5.05 0.00 0.00 4.63
354 355 3.886505 AGTATATATAGAGCAGCCGGAGC 59.113 47.826 5.05 8.78 40.32 4.70
355 356 1.475403 TATATAGAGCAGCCGGAGCC 58.525 55.000 5.05 2.58 41.25 4.70
356 357 1.599606 ATATAGAGCAGCCGGAGCCG 61.600 60.000 5.05 1.06 41.25 5.52
400 401 3.784412 CGTAGCGCAACGGTTGGG 61.784 66.667 27.59 27.59 45.41 4.12
401 402 3.428282 GTAGCGCAACGGTTGGGG 61.428 66.667 30.85 17.37 43.13 4.96
402 403 3.627952 TAGCGCAACGGTTGGGGA 61.628 61.111 30.85 3.37 43.13 4.81
403 404 3.887335 TAGCGCAACGGTTGGGGAC 62.887 63.158 30.85 19.23 43.13 4.46
411 412 4.452733 GGTTGGGGACGGCGAGAG 62.453 72.222 16.62 0.00 0.00 3.20
412 413 4.452733 GTTGGGGACGGCGAGAGG 62.453 72.222 16.62 0.00 0.00 3.69
417 418 4.899239 GGACGGCGAGAGGGCATG 62.899 72.222 16.62 0.00 42.43 4.06
418 419 4.899239 GACGGCGAGAGGGCATGG 62.899 72.222 16.62 0.00 42.43 3.66
438 439 3.923017 GGGGGATGAATAAAGATTGCG 57.077 47.619 0.00 0.00 0.00 4.85
439 440 2.558359 GGGGGATGAATAAAGATTGCGG 59.442 50.000 0.00 0.00 0.00 5.69
440 441 3.222603 GGGGATGAATAAAGATTGCGGT 58.777 45.455 0.00 0.00 0.00 5.68
441 442 3.004734 GGGGATGAATAAAGATTGCGGTG 59.995 47.826 0.00 0.00 0.00 4.94
442 443 3.004734 GGGATGAATAAAGATTGCGGTGG 59.995 47.826 0.00 0.00 0.00 4.61
443 444 3.632145 GGATGAATAAAGATTGCGGTGGT 59.368 43.478 0.00 0.00 0.00 4.16
444 445 4.498009 GGATGAATAAAGATTGCGGTGGTG 60.498 45.833 0.00 0.00 0.00 4.17
445 446 3.680490 TGAATAAAGATTGCGGTGGTGA 58.320 40.909 0.00 0.00 0.00 4.02
446 447 4.269183 TGAATAAAGATTGCGGTGGTGAT 58.731 39.130 0.00 0.00 0.00 3.06
447 448 4.335315 TGAATAAAGATTGCGGTGGTGATC 59.665 41.667 0.00 0.00 0.00 2.92
448 449 1.086696 AAAGATTGCGGTGGTGATCG 58.913 50.000 0.00 0.00 0.00 3.69
449 450 0.249120 AAGATTGCGGTGGTGATCGA 59.751 50.000 0.00 0.00 0.00 3.59
450 451 0.249120 AGATTGCGGTGGTGATCGAA 59.751 50.000 0.00 0.00 0.00 3.71
451 452 0.373716 GATTGCGGTGGTGATCGAAC 59.626 55.000 0.00 0.00 0.00 3.95
452 453 1.358725 ATTGCGGTGGTGATCGAACG 61.359 55.000 0.00 0.00 35.67 3.95
453 454 3.186047 GCGGTGGTGATCGAACGG 61.186 66.667 0.00 0.00 33.29 4.44
454 455 2.508439 CGGTGGTGATCGAACGGG 60.508 66.667 0.00 0.00 0.00 5.28
455 456 2.125269 GGTGGTGATCGAACGGGG 60.125 66.667 0.00 0.00 0.00 5.73
456 457 2.660802 GTGGTGATCGAACGGGGT 59.339 61.111 0.00 0.00 0.00 4.95
457 458 1.447314 GTGGTGATCGAACGGGGTC 60.447 63.158 0.00 0.00 0.00 4.46
458 459 1.909287 TGGTGATCGAACGGGGTCA 60.909 57.895 0.00 0.00 0.00 4.02
459 460 1.153628 GGTGATCGAACGGGGTCAG 60.154 63.158 0.00 0.00 0.00 3.51
460 461 1.590147 GTGATCGAACGGGGTCAGT 59.410 57.895 0.00 0.00 0.00 3.41
461 462 0.736325 GTGATCGAACGGGGTCAGTG 60.736 60.000 0.00 0.00 0.00 3.66
462 463 1.153628 GATCGAACGGGGTCAGTGG 60.154 63.158 0.00 0.00 0.00 4.00
463 464 1.601419 GATCGAACGGGGTCAGTGGA 61.601 60.000 0.00 0.00 0.00 4.02
464 465 1.189524 ATCGAACGGGGTCAGTGGAA 61.190 55.000 0.00 0.00 0.00 3.53
465 466 1.374252 CGAACGGGGTCAGTGGAAG 60.374 63.158 0.00 0.00 0.00 3.46
466 467 1.003718 GAACGGGGTCAGTGGAAGG 60.004 63.158 0.00 0.00 0.00 3.46
467 468 3.192103 AACGGGGTCAGTGGAAGGC 62.192 63.158 0.00 0.00 0.00 4.35
468 469 4.410400 CGGGGTCAGTGGAAGGCC 62.410 72.222 0.00 0.00 0.00 5.19
469 470 4.410400 GGGGTCAGTGGAAGGCCG 62.410 72.222 0.00 0.00 36.79 6.13
470 471 4.410400 GGGTCAGTGGAAGGCCGG 62.410 72.222 0.00 0.00 36.79 6.13
472 473 4.329545 GTCAGTGGAAGGCCGGCA 62.330 66.667 30.85 3.35 36.79 5.69
473 474 4.329545 TCAGTGGAAGGCCGGCAC 62.330 66.667 30.85 17.74 36.79 5.01
490 491 2.666190 CCGCTGTGGTGTGGAGTG 60.666 66.667 0.00 0.00 39.82 3.51
491 492 3.349006 CGCTGTGGTGTGGAGTGC 61.349 66.667 0.00 0.00 0.00 4.40
492 493 2.111878 GCTGTGGTGTGGAGTGCT 59.888 61.111 0.00 0.00 0.00 4.40
493 494 1.963338 GCTGTGGTGTGGAGTGCTC 60.963 63.158 0.00 0.00 0.00 4.26
494 495 1.665916 CTGTGGTGTGGAGTGCTCG 60.666 63.158 0.00 0.00 0.00 5.03
495 496 3.044305 GTGGTGTGGAGTGCTCGC 61.044 66.667 0.00 0.00 0.00 5.03
496 497 4.662961 TGGTGTGGAGTGCTCGCG 62.663 66.667 0.00 0.00 0.00 5.87
497 498 4.664677 GGTGTGGAGTGCTCGCGT 62.665 66.667 5.77 0.00 0.00 6.01
498 499 3.106407 GTGTGGAGTGCTCGCGTC 61.106 66.667 5.77 0.00 0.00 5.19
499 500 4.700365 TGTGGAGTGCTCGCGTCG 62.700 66.667 5.77 0.00 0.00 5.12
530 531 4.422546 GGTTCTCCGAGGAAGATATACG 57.577 50.000 0.00 0.00 0.00 3.06
531 532 3.190953 GGTTCTCCGAGGAAGATATACGG 59.809 52.174 0.00 0.00 44.09 4.02
532 533 3.069079 TCTCCGAGGAAGATATACGGG 57.931 52.381 0.00 0.00 43.14 5.28
533 534 2.093106 CTCCGAGGAAGATATACGGGG 58.907 57.143 0.00 0.00 43.14 5.73
534 535 1.426598 TCCGAGGAAGATATACGGGGT 59.573 52.381 0.00 0.00 43.14 4.95
535 536 2.158415 TCCGAGGAAGATATACGGGGTT 60.158 50.000 0.00 0.00 43.14 4.11
536 537 2.631545 CCGAGGAAGATATACGGGGTTT 59.368 50.000 0.00 0.00 39.92 3.27
537 538 3.070590 CCGAGGAAGATATACGGGGTTTT 59.929 47.826 0.00 0.00 39.92 2.43
538 539 4.056050 CGAGGAAGATATACGGGGTTTTG 58.944 47.826 0.00 0.00 0.00 2.44
539 540 4.442472 CGAGGAAGATATACGGGGTTTTGT 60.442 45.833 0.00 0.00 0.00 2.83
540 541 5.434408 GAGGAAGATATACGGGGTTTTGTT 58.566 41.667 0.00 0.00 0.00 2.83
541 542 5.434408 AGGAAGATATACGGGGTTTTGTTC 58.566 41.667 0.00 0.00 0.00 3.18
542 543 4.271776 GGAAGATATACGGGGTTTTGTTCG 59.728 45.833 0.00 0.00 0.00 3.95
543 544 3.200483 AGATATACGGGGTTTTGTTCGC 58.800 45.455 0.00 0.00 0.00 4.70
544 545 1.357907 TATACGGGGTTTTGTTCGCG 58.642 50.000 0.00 0.00 43.41 5.87
545 546 0.320596 ATACGGGGTTTTGTTCGCGA 60.321 50.000 3.71 3.71 40.92 5.87
546 547 0.945265 TACGGGGTTTTGTTCGCGAG 60.945 55.000 9.59 0.00 40.92 5.03
547 548 2.254350 GGGGTTTTGTTCGCGAGC 59.746 61.111 16.69 16.69 0.00 5.03
548 549 2.258726 GGGGTTTTGTTCGCGAGCT 61.259 57.895 23.51 0.00 0.00 4.09
549 550 1.082104 GGGTTTTGTTCGCGAGCTG 60.082 57.895 23.51 0.00 0.00 4.24
550 551 1.082104 GGTTTTGTTCGCGAGCTGG 60.082 57.895 23.51 0.00 0.00 4.85
551 552 1.647084 GTTTTGTTCGCGAGCTGGT 59.353 52.632 23.51 0.00 0.00 4.00
552 553 0.863144 GTTTTGTTCGCGAGCTGGTA 59.137 50.000 23.51 0.08 0.00 3.25
553 554 1.136336 GTTTTGTTCGCGAGCTGGTAG 60.136 52.381 23.51 0.00 0.00 3.18
554 555 0.032952 TTTGTTCGCGAGCTGGTAGT 59.967 50.000 23.51 0.00 0.00 2.73
555 556 0.032952 TTGTTCGCGAGCTGGTAGTT 59.967 50.000 23.51 0.00 0.00 2.24
556 557 0.032952 TGTTCGCGAGCTGGTAGTTT 59.967 50.000 23.51 0.00 0.00 2.66
557 558 1.145803 GTTCGCGAGCTGGTAGTTTT 58.854 50.000 16.26 0.00 0.00 2.43
558 559 1.126296 GTTCGCGAGCTGGTAGTTTTC 59.874 52.381 16.26 0.00 0.00 2.29
750 752 4.322424 CGCCTTAATTTTACAAAAGCCCCT 60.322 41.667 0.00 0.00 0.00 4.79
753 755 6.742926 GCCTTAATTTTACAAAAGCCCCTTCA 60.743 38.462 0.00 0.00 0.00 3.02
879 903 4.821589 CCAGCCGTCTCCGCCTTC 62.822 72.222 0.00 0.00 0.00 3.46
880 904 4.821589 CAGCCGTCTCCGCCTTCC 62.822 72.222 0.00 0.00 0.00 3.46
884 908 3.839432 CGTCTCCGCCTTCCCCTC 61.839 72.222 0.00 0.00 0.00 4.30
885 909 3.471806 GTCTCCGCCTTCCCCTCC 61.472 72.222 0.00 0.00 0.00 4.30
893 917 4.148825 CTTCCCCTCCGACGCCAG 62.149 72.222 0.00 0.00 0.00 4.85
907 931 4.821589 CCAGCCGTCTCCGCCTTC 62.822 72.222 0.00 0.00 0.00 3.46
908 932 4.821589 CAGCCGTCTCCGCCTTCC 62.822 72.222 0.00 0.00 0.00 3.46
912 936 3.839432 CGTCTCCGCCTTCCCCTC 61.839 72.222 0.00 0.00 0.00 4.30
913 937 3.471806 GTCTCCGCCTTCCCCTCC 61.472 72.222 0.00 0.00 0.00 4.30
921 945 4.148825 CTTCCCCTCCGACGCCAG 62.149 72.222 0.00 0.00 0.00 4.85
1522 1623 7.716560 TCTGACCATTGTTATATGTTGATCTGG 59.283 37.037 0.00 0.00 0.00 3.86
1790 1978 0.881796 GTTAGCCTGTTTGGTCTGCC 59.118 55.000 0.00 0.00 38.35 4.85
1834 2022 4.920640 TGTAGCACTAGTGATAAGAGGC 57.079 45.455 27.08 12.28 32.87 4.70
2078 2271 8.296713 TCTGTTTACTTAAATGAAATCAGTGGC 58.703 33.333 0.00 0.00 0.00 5.01
2080 2273 9.290988 TGTTTACTTAAATGAAATCAGTGGCTA 57.709 29.630 0.00 0.00 0.00 3.93
2098 2291 9.800433 CAGTGGCTATCTATTATCTATGTTCAG 57.200 37.037 0.00 0.00 0.00 3.02
2100 2293 9.579768 GTGGCTATCTATTATCTATGTTCAGTG 57.420 37.037 0.00 0.00 0.00 3.66
2101 2294 9.314133 TGGCTATCTATTATCTATGTTCAGTGT 57.686 33.333 0.00 0.00 0.00 3.55
2291 4132 3.054434 ACCAAACATGAGCCTGTATGCTA 60.054 43.478 0.00 0.00 42.95 3.49
2571 4459 2.099756 GCACCACAAAAGCAGACTCTTT 59.900 45.455 0.00 0.00 37.86 2.52
2644 4532 4.616835 GCAGGATCACAAAATGTCAGGAAC 60.617 45.833 0.00 0.00 0.00 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
175 176 2.041819 AGGATCCCGGTGGACTCC 60.042 66.667 8.55 0.00 45.58 3.85
187 188 1.467920 CCAAGGGCAAGTTCAGGATC 58.532 55.000 0.00 0.00 0.00 3.36
258 259 1.973281 GCAGCAGCAAAGGTAGCCA 60.973 57.895 0.00 0.00 41.58 4.75
259 260 0.392998 TAGCAGCAGCAAAGGTAGCC 60.393 55.000 3.17 0.00 45.49 3.93
264 265 0.671781 AGTCGTAGCAGCAGCAAAGG 60.672 55.000 3.17 0.00 45.49 3.11
267 268 0.945743 CACAGTCGTAGCAGCAGCAA 60.946 55.000 3.17 0.00 45.49 3.91
268 269 1.373371 CACAGTCGTAGCAGCAGCA 60.373 57.895 3.17 0.00 45.49 4.41
269 270 0.946221 AACACAGTCGTAGCAGCAGC 60.946 55.000 0.00 0.00 42.56 5.25
270 271 0.786581 CAACACAGTCGTAGCAGCAG 59.213 55.000 0.00 0.00 0.00 4.24
271 272 0.599991 CCAACACAGTCGTAGCAGCA 60.600 55.000 0.00 0.00 0.00 4.41
272 273 1.901650 GCCAACACAGTCGTAGCAGC 61.902 60.000 0.00 0.00 0.00 5.25
275 276 0.234884 GTTGCCAACACAGTCGTAGC 59.765 55.000 1.91 0.00 0.00 3.58
276 277 1.865865 AGTTGCCAACACAGTCGTAG 58.134 50.000 10.69 0.00 0.00 3.51
277 278 1.937223 CAAGTTGCCAACACAGTCGTA 59.063 47.619 10.69 0.00 0.00 3.43
278 279 0.732571 CAAGTTGCCAACACAGTCGT 59.267 50.000 10.69 0.00 0.00 4.34
279 280 0.029300 CCAAGTTGCCAACACAGTCG 59.971 55.000 10.69 0.00 0.00 4.18
280 281 1.102978 ACCAAGTTGCCAACACAGTC 58.897 50.000 10.69 0.00 0.00 3.51
281 282 0.817013 CACCAAGTTGCCAACACAGT 59.183 50.000 10.69 0.50 0.00 3.55
282 283 0.817013 ACACCAAGTTGCCAACACAG 59.183 50.000 10.69 0.00 0.00 3.66
283 284 0.529833 CACACCAAGTTGCCAACACA 59.470 50.000 10.69 0.00 0.00 3.72
284 285 0.530288 ACACACCAAGTTGCCAACAC 59.470 50.000 10.69 0.00 0.00 3.32
285 286 2.130272 TACACACCAAGTTGCCAACA 57.870 45.000 10.69 0.00 0.00 3.33
286 287 3.380142 CATTACACACCAAGTTGCCAAC 58.620 45.455 0.00 0.00 0.00 3.77
287 288 2.223923 GCATTACACACCAAGTTGCCAA 60.224 45.455 0.00 0.00 0.00 4.52
288 289 1.339610 GCATTACACACCAAGTTGCCA 59.660 47.619 0.00 0.00 0.00 4.92
289 290 1.339610 TGCATTACACACCAAGTTGCC 59.660 47.619 0.00 0.00 30.89 4.52
290 291 2.034558 ACTGCATTACACACCAAGTTGC 59.965 45.455 0.00 0.00 32.24 4.17
291 292 3.988379 ACTGCATTACACACCAAGTTG 57.012 42.857 0.00 0.00 0.00 3.16
292 293 4.456535 TGTACTGCATTACACACCAAGTT 58.543 39.130 12.47 0.00 0.00 2.66
293 294 4.065088 CTGTACTGCATTACACACCAAGT 58.935 43.478 12.47 0.00 0.00 3.16
294 295 4.065088 ACTGTACTGCATTACACACCAAG 58.935 43.478 12.47 5.31 0.00 3.61
295 296 4.062293 GACTGTACTGCATTACACACCAA 58.938 43.478 12.47 0.00 0.00 3.67
296 297 3.323691 AGACTGTACTGCATTACACACCA 59.676 43.478 12.47 0.00 0.00 4.17
297 298 3.926616 AGACTGTACTGCATTACACACC 58.073 45.455 12.47 5.50 0.00 4.16
298 299 4.556233 TGAGACTGTACTGCATTACACAC 58.444 43.478 12.47 9.49 0.00 3.82
299 300 4.809673 CTGAGACTGTACTGCATTACACA 58.190 43.478 12.47 8.51 0.00 3.72
300 301 3.614616 GCTGAGACTGTACTGCATTACAC 59.385 47.826 12.47 5.00 0.00 2.90
301 302 3.673323 CGCTGAGACTGTACTGCATTACA 60.673 47.826 15.27 15.27 0.00 2.41
302 303 2.854777 CGCTGAGACTGTACTGCATTAC 59.145 50.000 7.25 7.25 0.00 1.89
303 304 2.159240 CCGCTGAGACTGTACTGCATTA 60.159 50.000 13.33 0.00 0.00 1.90
304 305 1.404717 CCGCTGAGACTGTACTGCATT 60.405 52.381 13.33 0.00 0.00 3.56
305 306 0.174389 CCGCTGAGACTGTACTGCAT 59.826 55.000 13.33 0.00 0.00 3.96
306 307 1.586541 CCGCTGAGACTGTACTGCA 59.413 57.895 13.33 0.00 0.00 4.41
307 308 1.807573 GCCGCTGAGACTGTACTGC 60.808 63.158 0.00 6.37 0.00 4.40
308 309 1.515088 CGCCGCTGAGACTGTACTG 60.515 63.158 0.00 0.00 0.00 2.74
309 310 2.878429 CGCCGCTGAGACTGTACT 59.122 61.111 0.00 0.00 0.00 2.73
310 311 2.881352 GCGCCGCTGAGACTGTAC 60.881 66.667 0.00 0.00 0.00 2.90
311 312 4.476410 CGCGCCGCTGAGACTGTA 62.476 66.667 7.78 0.00 0.00 2.74
319 320 2.781750 ATATACTCGACGCGCCGCTG 62.782 60.000 10.84 8.05 0.00 5.18
320 321 1.293963 TATATACTCGACGCGCCGCT 61.294 55.000 10.84 0.00 0.00 5.52
321 322 0.247974 ATATATACTCGACGCGCCGC 60.248 55.000 10.84 0.00 0.00 6.53
322 323 2.537214 TCTATATATACTCGACGCGCCG 59.463 50.000 9.05 9.05 0.00 6.46
323 324 3.604314 GCTCTATATATACTCGACGCGCC 60.604 52.174 5.73 0.00 0.00 6.53
324 325 3.001026 TGCTCTATATATACTCGACGCGC 59.999 47.826 5.73 0.00 0.00 6.86
325 326 4.753278 CTGCTCTATATATACTCGACGCG 58.247 47.826 3.53 3.53 0.00 6.01
326 327 4.520078 GCTGCTCTATATATACTCGACGC 58.480 47.826 0.00 0.00 0.00 5.19
327 328 4.318192 CGGCTGCTCTATATATACTCGACG 60.318 50.000 0.00 0.00 0.00 5.12
328 329 4.024725 CCGGCTGCTCTATATATACTCGAC 60.025 50.000 0.00 0.00 0.00 4.20
329 330 4.127907 CCGGCTGCTCTATATATACTCGA 58.872 47.826 0.00 0.00 0.00 4.04
330 331 4.127907 TCCGGCTGCTCTATATATACTCG 58.872 47.826 0.00 0.00 0.00 4.18
331 332 4.023536 GCTCCGGCTGCTCTATATATACTC 60.024 50.000 11.24 0.00 35.22 2.59
332 333 3.886505 GCTCCGGCTGCTCTATATATACT 59.113 47.826 11.24 0.00 35.22 2.12
333 334 3.004944 GGCTCCGGCTGCTCTATATATAC 59.995 52.174 16.62 0.00 38.73 1.47
334 335 3.223435 GGCTCCGGCTGCTCTATATATA 58.777 50.000 16.62 0.00 38.73 0.86
335 336 2.035632 GGCTCCGGCTGCTCTATATAT 58.964 52.381 16.62 0.00 38.73 0.86
336 337 1.475403 GGCTCCGGCTGCTCTATATA 58.525 55.000 16.62 0.00 38.73 0.86
337 338 1.599606 CGGCTCCGGCTGCTCTATAT 61.600 60.000 16.62 0.00 38.06 0.86
338 339 2.268802 CGGCTCCGGCTGCTCTATA 61.269 63.158 16.62 0.00 38.06 1.31
339 340 3.610669 CGGCTCCGGCTGCTCTAT 61.611 66.667 16.62 0.00 38.06 1.98
383 384 3.784412 CCCAACCGTTGCGCTACG 61.784 66.667 32.31 32.31 41.06 3.51
384 385 3.428282 CCCCAACCGTTGCGCTAC 61.428 66.667 12.16 12.16 0.00 3.58
385 386 3.627952 TCCCCAACCGTTGCGCTA 61.628 61.111 9.73 0.00 0.00 4.26
394 395 4.452733 CTCTCGCCGTCCCCAACC 62.453 72.222 0.00 0.00 0.00 3.77
395 396 4.452733 CCTCTCGCCGTCCCCAAC 62.453 72.222 0.00 0.00 0.00 3.77
400 401 4.899239 CATGCCCTCTCGCCGTCC 62.899 72.222 0.00 0.00 0.00 4.79
401 402 4.899239 CCATGCCCTCTCGCCGTC 62.899 72.222 0.00 0.00 0.00 4.79
418 419 2.558359 CCGCAATCTTTATTCATCCCCC 59.442 50.000 0.00 0.00 0.00 5.40
419 420 3.004734 CACCGCAATCTTTATTCATCCCC 59.995 47.826 0.00 0.00 0.00 4.81
420 421 3.004734 CCACCGCAATCTTTATTCATCCC 59.995 47.826 0.00 0.00 0.00 3.85
421 422 3.632145 ACCACCGCAATCTTTATTCATCC 59.368 43.478 0.00 0.00 0.00 3.51
422 423 4.335315 TCACCACCGCAATCTTTATTCATC 59.665 41.667 0.00 0.00 0.00 2.92
423 424 4.269183 TCACCACCGCAATCTTTATTCAT 58.731 39.130 0.00 0.00 0.00 2.57
424 425 3.680490 TCACCACCGCAATCTTTATTCA 58.320 40.909 0.00 0.00 0.00 2.57
425 426 4.552767 CGATCACCACCGCAATCTTTATTC 60.553 45.833 0.00 0.00 0.00 1.75
426 427 3.312421 CGATCACCACCGCAATCTTTATT 59.688 43.478 0.00 0.00 0.00 1.40
427 428 2.872245 CGATCACCACCGCAATCTTTAT 59.128 45.455 0.00 0.00 0.00 1.40
428 429 2.093921 TCGATCACCACCGCAATCTTTA 60.094 45.455 0.00 0.00 0.00 1.85
429 430 1.086696 CGATCACCACCGCAATCTTT 58.913 50.000 0.00 0.00 0.00 2.52
430 431 0.249120 TCGATCACCACCGCAATCTT 59.751 50.000 0.00 0.00 0.00 2.40
431 432 0.249120 TTCGATCACCACCGCAATCT 59.751 50.000 0.00 0.00 0.00 2.40
432 433 0.373716 GTTCGATCACCACCGCAATC 59.626 55.000 0.00 0.00 0.00 2.67
433 434 1.358725 CGTTCGATCACCACCGCAAT 61.359 55.000 0.00 0.00 0.00 3.56
434 435 2.024868 CGTTCGATCACCACCGCAA 61.025 57.895 0.00 0.00 0.00 4.85
435 436 2.431771 CGTTCGATCACCACCGCA 60.432 61.111 0.00 0.00 0.00 5.69
436 437 3.186047 CCGTTCGATCACCACCGC 61.186 66.667 0.00 0.00 0.00 5.68
437 438 2.508439 CCCGTTCGATCACCACCG 60.508 66.667 0.00 0.00 0.00 4.94
438 439 2.125269 CCCCGTTCGATCACCACC 60.125 66.667 0.00 0.00 0.00 4.61
439 440 1.447314 GACCCCGTTCGATCACCAC 60.447 63.158 0.00 0.00 0.00 4.16
440 441 1.884075 CTGACCCCGTTCGATCACCA 61.884 60.000 0.00 0.00 0.00 4.17
441 442 1.153628 CTGACCCCGTTCGATCACC 60.154 63.158 0.00 0.00 0.00 4.02
442 443 0.736325 CACTGACCCCGTTCGATCAC 60.736 60.000 0.00 0.00 0.00 3.06
443 444 1.589630 CACTGACCCCGTTCGATCA 59.410 57.895 0.00 0.00 0.00 2.92
444 445 1.153628 CCACTGACCCCGTTCGATC 60.154 63.158 0.00 0.00 0.00 3.69
445 446 1.189524 TTCCACTGACCCCGTTCGAT 61.190 55.000 0.00 0.00 0.00 3.59
446 447 1.812686 CTTCCACTGACCCCGTTCGA 61.813 60.000 0.00 0.00 0.00 3.71
447 448 1.374252 CTTCCACTGACCCCGTTCG 60.374 63.158 0.00 0.00 0.00 3.95
448 449 1.003718 CCTTCCACTGACCCCGTTC 60.004 63.158 0.00 0.00 0.00 3.95
449 450 3.157680 CCTTCCACTGACCCCGTT 58.842 61.111 0.00 0.00 0.00 4.44
450 451 3.637273 GCCTTCCACTGACCCCGT 61.637 66.667 0.00 0.00 0.00 5.28
451 452 4.410400 GGCCTTCCACTGACCCCG 62.410 72.222 0.00 0.00 0.00 5.73
452 453 4.410400 CGGCCTTCCACTGACCCC 62.410 72.222 0.00 0.00 0.00 4.95
453 454 4.410400 CCGGCCTTCCACTGACCC 62.410 72.222 0.00 0.00 0.00 4.46
455 456 4.329545 TGCCGGCCTTCCACTGAC 62.330 66.667 26.77 0.00 0.00 3.51
456 457 4.329545 GTGCCGGCCTTCCACTGA 62.330 66.667 26.77 0.00 0.00 3.41
473 474 2.666190 CACTCCACACCACAGCGG 60.666 66.667 0.00 0.00 42.50 5.52
474 475 3.349006 GCACTCCACACCACAGCG 61.349 66.667 0.00 0.00 0.00 5.18
475 476 1.963338 GAGCACTCCACACCACAGC 60.963 63.158 0.00 0.00 0.00 4.40
476 477 1.665916 CGAGCACTCCACACCACAG 60.666 63.158 0.00 0.00 0.00 3.66
477 478 2.421314 CGAGCACTCCACACCACA 59.579 61.111 0.00 0.00 0.00 4.17
478 479 3.044305 GCGAGCACTCCACACCAC 61.044 66.667 0.00 0.00 0.00 4.16
479 480 4.662961 CGCGAGCACTCCACACCA 62.663 66.667 0.00 0.00 0.00 4.17
480 481 4.664677 ACGCGAGCACTCCACACC 62.665 66.667 15.93 0.00 0.00 4.16
481 482 3.106407 GACGCGAGCACTCCACAC 61.106 66.667 15.93 0.00 0.00 3.82
482 483 4.700365 CGACGCGAGCACTCCACA 62.700 66.667 15.93 0.00 0.00 4.17
509 510 3.190953 CCGTATATCTTCCTCGGAGAACC 59.809 52.174 6.58 0.00 43.22 3.62
510 511 3.190953 CCCGTATATCTTCCTCGGAGAAC 59.809 52.174 6.58 0.00 43.22 3.01
511 512 3.418995 CCCGTATATCTTCCTCGGAGAA 58.581 50.000 6.58 0.00 43.22 2.87
512 513 2.290768 CCCCGTATATCTTCCTCGGAGA 60.291 54.545 6.58 0.00 43.22 3.71
513 514 2.093106 CCCCGTATATCTTCCTCGGAG 58.907 57.143 0.00 0.00 43.22 4.63
514 515 1.426598 ACCCCGTATATCTTCCTCGGA 59.573 52.381 3.45 0.00 43.22 4.55
515 516 1.920610 ACCCCGTATATCTTCCTCGG 58.079 55.000 0.00 0.00 40.72 4.63
516 517 4.056050 CAAAACCCCGTATATCTTCCTCG 58.944 47.826 0.00 0.00 0.00 4.63
517 518 5.032327 ACAAAACCCCGTATATCTTCCTC 57.968 43.478 0.00 0.00 0.00 3.71
518 519 5.434408 GAACAAAACCCCGTATATCTTCCT 58.566 41.667 0.00 0.00 0.00 3.36
519 520 4.271776 CGAACAAAACCCCGTATATCTTCC 59.728 45.833 0.00 0.00 0.00 3.46
520 521 4.260497 GCGAACAAAACCCCGTATATCTTC 60.260 45.833 0.00 0.00 0.00 2.87
521 522 3.624410 GCGAACAAAACCCCGTATATCTT 59.376 43.478 0.00 0.00 0.00 2.40
522 523 3.200483 GCGAACAAAACCCCGTATATCT 58.800 45.455 0.00 0.00 0.00 1.98
523 524 2.033492 CGCGAACAAAACCCCGTATATC 60.033 50.000 0.00 0.00 0.00 1.63
524 525 1.935199 CGCGAACAAAACCCCGTATAT 59.065 47.619 0.00 0.00 0.00 0.86
525 526 1.067283 TCGCGAACAAAACCCCGTATA 60.067 47.619 6.20 0.00 0.00 1.47
526 527 0.320596 TCGCGAACAAAACCCCGTAT 60.321 50.000 6.20 0.00 0.00 3.06
527 528 0.945265 CTCGCGAACAAAACCCCGTA 60.945 55.000 11.33 0.00 0.00 4.02
528 529 2.203042 TCGCGAACAAAACCCCGT 60.203 55.556 6.20 0.00 0.00 5.28
529 530 2.554272 CTCGCGAACAAAACCCCG 59.446 61.111 11.33 0.00 0.00 5.73
530 531 2.254350 GCTCGCGAACAAAACCCC 59.746 61.111 11.33 0.00 0.00 4.95
531 532 1.082104 CAGCTCGCGAACAAAACCC 60.082 57.895 11.33 0.00 0.00 4.11
532 533 1.082104 CCAGCTCGCGAACAAAACC 60.082 57.895 11.33 0.00 0.00 3.27
533 534 0.863144 TACCAGCTCGCGAACAAAAC 59.137 50.000 11.33 0.00 0.00 2.43
534 535 1.144969 CTACCAGCTCGCGAACAAAA 58.855 50.000 11.33 0.00 0.00 2.44
535 536 0.032952 ACTACCAGCTCGCGAACAAA 59.967 50.000 11.33 0.00 0.00 2.83
536 537 0.032952 AACTACCAGCTCGCGAACAA 59.967 50.000 11.33 0.00 0.00 2.83
537 538 0.032952 AAACTACCAGCTCGCGAACA 59.967 50.000 11.33 0.00 0.00 3.18
538 539 1.126296 GAAAACTACCAGCTCGCGAAC 59.874 52.381 11.33 5.62 0.00 3.95
539 540 1.000506 AGAAAACTACCAGCTCGCGAA 59.999 47.619 11.33 0.00 0.00 4.70
540 541 0.601558 AGAAAACTACCAGCTCGCGA 59.398 50.000 9.26 9.26 0.00 5.87
541 542 1.429463 AAGAAAACTACCAGCTCGCG 58.571 50.000 0.00 0.00 0.00 5.87
542 543 3.250040 TCAAAAGAAAACTACCAGCTCGC 59.750 43.478 0.00 0.00 0.00 5.03
543 544 4.511826 ACTCAAAAGAAAACTACCAGCTCG 59.488 41.667 0.00 0.00 0.00 5.03
544 545 6.378710 AACTCAAAAGAAAACTACCAGCTC 57.621 37.500 0.00 0.00 0.00 4.09
545 546 7.875327 TTAACTCAAAAGAAAACTACCAGCT 57.125 32.000 0.00 0.00 0.00 4.24
546 547 9.608617 GTATTAACTCAAAAGAAAACTACCAGC 57.391 33.333 0.00 0.00 0.00 4.85
548 549 9.629878 TGGTATTAACTCAAAAGAAAACTACCA 57.370 29.630 0.00 0.00 33.29 3.25
549 550 9.888878 GTGGTATTAACTCAAAAGAAAACTACC 57.111 33.333 0.00 0.00 0.00 3.18
868 892 3.471806 GGAGGGGAAGGCGGAGAC 61.472 72.222 0.00 0.00 0.00 3.36
876 900 4.148825 CTGGCGTCGGAGGGGAAG 62.149 72.222 0.00 0.00 0.00 3.46
896 920 3.471806 GGAGGGGAAGGCGGAGAC 61.472 72.222 0.00 0.00 0.00 3.36
904 928 4.148825 CTGGCGTCGGAGGGGAAG 62.149 72.222 0.00 0.00 0.00 3.46
1426 1527 6.464222 TCACGAGGACAAACAAGAAATCTAT 58.536 36.000 0.00 0.00 0.00 1.98
1478 1579 8.282455 TGGTCAGATAAACAACACACTTTTTA 57.718 30.769 0.00 0.00 0.00 1.52
1522 1623 5.177327 CCAATTTGTTCAGTACAACAATGGC 59.823 40.000 13.98 0.00 46.09 4.40
1790 1978 0.723414 CCATACAACAGTGCAGAGCG 59.277 55.000 0.00 0.00 0.00 5.03
1834 2022 7.090808 TCTAACATCACTAGTGCTACACAAAG 58.909 38.462 18.45 7.72 36.74 2.77
2052 2245 8.296713 GCCACTGATTTCATTTAAGTAAACAGA 58.703 33.333 0.00 0.00 0.00 3.41
2053 2246 8.299570 AGCCACTGATTTCATTTAAGTAAACAG 58.700 33.333 0.00 0.00 0.00 3.16
2074 2267 9.579768 CACTGAACATAGATAATAGATAGCCAC 57.420 37.037 0.00 0.00 0.00 5.01
2291 4132 3.142028 AGGAGGGAAGCTAGCTCTTATCT 59.858 47.826 19.65 11.28 0.00 1.98
2571 4459 1.306997 CCTCCTGGGCCACTTCCTA 60.307 63.158 0.00 0.00 0.00 2.94
2644 4532 8.537049 TGCATTTCCTTTTCTCATTTTGTATG 57.463 30.769 0.00 0.00 0.00 2.39
2724 4612 1.307343 ATAGGCCAGGAGGTGCACT 60.307 57.895 17.98 2.27 37.19 4.40


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

AutoCloner maintained by Alex Coulton.