Multiple sequence alignment - TraesCS3A01G173600

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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 TraesCS3A01G173600 chr3A 100.000 2216 0 0 1 2216 191843297 191841082 0.000000e+00 4093
1 TraesCS3A01G173600 chr6A 96.145 1816 53 6 410 2216 416253519 416251712 0.000000e+00 2950
2 TraesCS3A01G173600 chr7D 89.992 1189 100 10 578 1752 503287783 503288966 0.000000e+00 1519
3 TraesCS3A01G173600 chr7D 91.887 530 32 11 1693 2216 503288985 503289509 0.000000e+00 730
4 TraesCS3A01G173600 chr7D 89.441 161 17 0 409 569 578518490 578518330 1.040000e-48 204
5 TraesCS3A01G173600 chr4D 83.504 1073 117 19 578 1637 172018896 172017871 0.000000e+00 946
6 TraesCS3A01G173600 chr4D 83.461 913 114 17 855 1752 333258314 333257424 0.000000e+00 815
7 TraesCS3A01G173600 chr4D 85.578 735 81 17 1502 2216 464366882 464367611 0.000000e+00 747
8 TraesCS3A01G173600 chr4D 83.462 260 33 2 617 867 333265281 333265023 1.320000e-57 233
9 TraesCS3A01G173600 chr6D 83.487 975 125 16 792 1752 132003196 132004148 0.000000e+00 876
10 TraesCS3A01G173600 chr6D 85.830 247 26 2 617 854 132002972 132003218 1.020000e-63 254
11 TraesCS3A01G173600 chr5D 90.680 515 40 8 1707 2216 283105948 283106459 0.000000e+00 678
12 TraesCS3A01G173600 chr5D 83.385 644 76 24 1123 1748 283105306 283105936 3.190000e-158 568
13 TraesCS3A01G173600 chr5D 89.490 314 29 4 1440 1751 46648640 46648329 5.740000e-106 394
14 TraesCS3A01G173600 chr2B 84.789 664 85 13 1506 2162 79358095 79358749 0.000000e+00 652
15 TraesCS3A01G173600 chr2B 88.650 511 45 11 1707 2214 761289583 761290083 5.230000e-171 610
16 TraesCS3A01G173600 chr2B 86.465 495 55 11 1662 2150 761250162 761250650 1.160000e-147 532
17 TraesCS3A01G173600 chr4B 88.235 510 53 7 1710 2216 109396872 109396367 8.750000e-169 603
18 TraesCS3A01G173600 chr4A 86.822 516 44 12 1707 2216 6803931 6804428 2.490000e-154 555
19 TraesCS3A01G173600 chr1D 83.016 630 66 22 1502 2122 342450080 342450677 1.160000e-147 532
20 TraesCS3A01G173600 chr3B 84.095 503 65 14 1626 2121 599096491 599096985 2.580000e-129 472
21 TraesCS3A01G173600 chr1A 87.379 412 34 10 1 409 470401506 470401110 7.210000e-125 457
22 TraesCS3A01G173600 chr2D 85.052 194 19 8 215 404 647199349 647199162 2.900000e-44 189


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 TraesCS3A01G173600 chr3A 191841082 191843297 2215 True 4093.0 4093 100.0000 1 2216 1 chr3A.!!$R1 2215
1 TraesCS3A01G173600 chr6A 416251712 416253519 1807 True 2950.0 2950 96.1450 410 2216 1 chr6A.!!$R1 1806
2 TraesCS3A01G173600 chr7D 503287783 503289509 1726 False 1124.5 1519 90.9395 578 2216 2 chr7D.!!$F1 1638
3 TraesCS3A01G173600 chr4D 172017871 172018896 1025 True 946.0 946 83.5040 578 1637 1 chr4D.!!$R1 1059
4 TraesCS3A01G173600 chr4D 333257424 333258314 890 True 815.0 815 83.4610 855 1752 1 chr4D.!!$R2 897
5 TraesCS3A01G173600 chr4D 464366882 464367611 729 False 747.0 747 85.5780 1502 2216 1 chr4D.!!$F1 714
6 TraesCS3A01G173600 chr6D 132002972 132004148 1176 False 565.0 876 84.6585 617 1752 2 chr6D.!!$F1 1135
7 TraesCS3A01G173600 chr5D 283105306 283106459 1153 False 623.0 678 87.0325 1123 2216 2 chr5D.!!$F1 1093
8 TraesCS3A01G173600 chr2B 79358095 79358749 654 False 652.0 652 84.7890 1506 2162 1 chr2B.!!$F1 656
9 TraesCS3A01G173600 chr2B 761289583 761290083 500 False 610.0 610 88.6500 1707 2214 1 chr2B.!!$F3 507
10 TraesCS3A01G173600 chr4B 109396367 109396872 505 True 603.0 603 88.2350 1710 2216 1 chr4B.!!$R1 506
11 TraesCS3A01G173600 chr1D 342450080 342450677 597 False 532.0 532 83.0160 1502 2122 1 chr1D.!!$F1 620

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
357 358 0.033405 TCCTTCACGAGGGAGGTAGG 60.033 60.0 6.16 0.0 46.31 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1284 1354 0.321122 GCAGCAGTAGCAGTTCCTGT 60.321 55.0 0.0 0.0 45.49 4.0 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
55 56 8.961294 ATTGAAAACAGTTCATTGAAATTGGA 57.039 26.923 0.00 0.00 0.00 3.53
56 57 8.783833 TTGAAAACAGTTCATTGAAATTGGAA 57.216 26.923 0.00 0.00 0.00 3.53
57 58 8.783833 TGAAAACAGTTCATTGAAATTGGAAA 57.216 26.923 0.00 0.00 0.00 3.13
58 59 9.224267 TGAAAACAGTTCATTGAAATTGGAAAA 57.776 25.926 0.00 0.00 0.00 2.29
167 168 8.524870 AAAAGGTCATCGATTTGAAGAAAATG 57.475 30.769 0.00 0.00 38.64 2.32
168 169 6.824305 AGGTCATCGATTTGAAGAAAATGT 57.176 33.333 0.00 0.00 38.64 2.71
169 170 7.219484 AGGTCATCGATTTGAAGAAAATGTT 57.781 32.000 0.00 0.00 38.64 2.71
170 171 7.308435 AGGTCATCGATTTGAAGAAAATGTTC 58.692 34.615 0.00 0.00 38.64 3.18
171 172 6.249260 GGTCATCGATTTGAAGAAAATGTTCG 59.751 38.462 0.00 0.00 38.64 3.95
172 173 6.797033 GTCATCGATTTGAAGAAAATGTTCGT 59.203 34.615 0.00 0.00 38.64 3.85
173 174 6.796552 TCATCGATTTGAAGAAAATGTTCGTG 59.203 34.615 0.00 0.00 38.64 4.35
174 175 6.055231 TCGATTTGAAGAAAATGTTCGTGT 57.945 33.333 0.00 0.00 38.64 4.49
175 176 7.179927 TCGATTTGAAGAAAATGTTCGTGTA 57.820 32.000 0.00 0.00 38.64 2.90
176 177 7.802738 TCGATTTGAAGAAAATGTTCGTGTAT 58.197 30.769 0.00 0.00 38.64 2.29
177 178 8.286800 TCGATTTGAAGAAAATGTTCGTGTATT 58.713 29.630 0.00 0.00 38.64 1.89
178 179 8.901748 CGATTTGAAGAAAATGTTCGTGTATTT 58.098 29.630 0.00 0.00 38.64 1.40
179 180 9.993881 GATTTGAAGAAAATGTTCGTGTATTTG 57.006 29.630 0.00 0.00 38.64 2.32
180 181 6.984740 TGAAGAAAATGTTCGTGTATTTGC 57.015 33.333 0.00 0.00 38.90 3.68
181 182 6.499172 TGAAGAAAATGTTCGTGTATTTGCA 58.501 32.000 0.00 0.00 38.90 4.08
182 183 6.975197 TGAAGAAAATGTTCGTGTATTTGCAA 59.025 30.769 0.00 0.00 38.90 4.08
183 184 7.489435 TGAAGAAAATGTTCGTGTATTTGCAAA 59.511 29.630 15.44 15.44 38.90 3.68
184 185 7.160633 AGAAAATGTTCGTGTATTTGCAAAC 57.839 32.000 15.41 3.90 38.90 2.93
185 186 6.754209 AGAAAATGTTCGTGTATTTGCAAACA 59.246 30.769 15.41 6.98 38.90 2.83
186 187 6.893958 AAATGTTCGTGTATTTGCAAACAA 57.106 29.167 15.41 2.68 31.19 2.83
198 199 5.649602 TTTGCAAACAAATTCATCGTTCC 57.350 34.783 8.05 0.00 40.84 3.62
199 200 4.313277 TGCAAACAAATTCATCGTTCCA 57.687 36.364 0.00 0.00 0.00 3.53
200 201 4.686972 TGCAAACAAATTCATCGTTCCAA 58.313 34.783 0.00 0.00 0.00 3.53
201 202 4.744137 TGCAAACAAATTCATCGTTCCAAG 59.256 37.500 0.00 0.00 0.00 3.61
202 203 4.981674 GCAAACAAATTCATCGTTCCAAGA 59.018 37.500 0.00 0.00 0.00 3.02
203 204 5.107875 GCAAACAAATTCATCGTTCCAAGAC 60.108 40.000 0.00 0.00 0.00 3.01
204 205 5.766150 AACAAATTCATCGTTCCAAGACA 57.234 34.783 0.00 0.00 0.00 3.41
205 206 5.766150 ACAAATTCATCGTTCCAAGACAA 57.234 34.783 0.00 0.00 0.00 3.18
206 207 6.142818 ACAAATTCATCGTTCCAAGACAAA 57.857 33.333 0.00 0.00 0.00 2.83
207 208 6.208644 ACAAATTCATCGTTCCAAGACAAAG 58.791 36.000 0.00 0.00 0.00 2.77
208 209 6.039270 ACAAATTCATCGTTCCAAGACAAAGA 59.961 34.615 0.00 0.00 0.00 2.52
209 210 6.633500 AATTCATCGTTCCAAGACAAAGAA 57.367 33.333 0.00 0.00 0.00 2.52
210 211 6.633500 ATTCATCGTTCCAAGACAAAGAAA 57.367 33.333 0.00 0.00 0.00 2.52
211 212 6.443934 TTCATCGTTCCAAGACAAAGAAAA 57.556 33.333 0.00 0.00 0.00 2.29
212 213 6.443934 TCATCGTTCCAAGACAAAGAAAAA 57.556 33.333 0.00 0.00 0.00 1.94
282 283 9.635520 AAAGAAGAACGAAGAACGAATAATAGA 57.364 29.630 0.00 0.00 45.77 1.98
283 284 8.617761 AGAAGAACGAAGAACGAATAATAGAC 57.382 34.615 0.00 0.00 45.77 2.59
284 285 7.428761 AGAAGAACGAAGAACGAATAATAGACG 59.571 37.037 0.00 0.00 45.77 4.18
285 286 6.779117 AGAACGAAGAACGAATAATAGACGA 58.221 36.000 0.00 0.00 45.77 4.20
286 287 7.246311 AGAACGAAGAACGAATAATAGACGAA 58.754 34.615 0.00 0.00 45.77 3.85
287 288 7.752239 AGAACGAAGAACGAATAATAGACGAAA 59.248 33.333 0.00 0.00 45.77 3.46
288 289 7.801547 ACGAAGAACGAATAATAGACGAAAA 57.198 32.000 0.00 0.00 45.77 2.29
289 290 8.231304 ACGAAGAACGAATAATAGACGAAAAA 57.769 30.769 0.00 0.00 45.77 1.94
311 312 5.834239 AAGTAAAACATAACCACGTCTCG 57.166 39.130 0.00 0.00 0.00 4.04
312 313 4.240096 AGTAAAACATAACCACGTCTCGG 58.760 43.478 0.00 0.00 0.00 4.63
313 314 2.825861 AAACATAACCACGTCTCGGT 57.174 45.000 0.00 0.00 38.85 4.69
314 315 2.358939 AACATAACCACGTCTCGGTC 57.641 50.000 0.00 0.00 34.99 4.79
315 316 1.542492 ACATAACCACGTCTCGGTCT 58.458 50.000 0.00 0.00 34.99 3.85
316 317 1.201647 ACATAACCACGTCTCGGTCTG 59.798 52.381 0.00 1.41 34.99 3.51
317 318 1.201647 CATAACCACGTCTCGGTCTGT 59.798 52.381 0.00 0.00 34.99 3.41
318 319 0.594602 TAACCACGTCTCGGTCTGTG 59.405 55.000 0.00 0.00 34.99 3.66
319 320 2.258591 CCACGTCTCGGTCTGTGG 59.741 66.667 3.97 3.97 45.17 4.17
320 321 2.561956 CCACGTCTCGGTCTGTGGT 61.562 63.158 8.91 0.00 45.34 4.16
321 322 1.362717 CACGTCTCGGTCTGTGGTT 59.637 57.895 0.00 0.00 0.00 3.67
322 323 0.939577 CACGTCTCGGTCTGTGGTTG 60.940 60.000 0.00 0.00 0.00 3.77
323 324 2.022129 CGTCTCGGTCTGTGGTTGC 61.022 63.158 0.00 0.00 0.00 4.17
324 325 2.022129 GTCTCGGTCTGTGGTTGCG 61.022 63.158 0.00 0.00 0.00 4.85
325 326 2.029073 CTCGGTCTGTGGTTGCGT 59.971 61.111 0.00 0.00 0.00 5.24
326 327 2.279851 TCGGTCTGTGGTTGCGTG 60.280 61.111 0.00 0.00 0.00 5.34
327 328 3.345808 CGGTCTGTGGTTGCGTGG 61.346 66.667 0.00 0.00 0.00 4.94
328 329 2.203153 GGTCTGTGGTTGCGTGGT 60.203 61.111 0.00 0.00 0.00 4.16
329 330 1.822186 GGTCTGTGGTTGCGTGGTT 60.822 57.895 0.00 0.00 0.00 3.67
330 331 0.533308 GGTCTGTGGTTGCGTGGTTA 60.533 55.000 0.00 0.00 0.00 2.85
331 332 1.301423 GTCTGTGGTTGCGTGGTTAA 58.699 50.000 0.00 0.00 0.00 2.01
332 333 1.671845 GTCTGTGGTTGCGTGGTTAAA 59.328 47.619 0.00 0.00 0.00 1.52
333 334 1.671845 TCTGTGGTTGCGTGGTTAAAC 59.328 47.619 0.00 0.00 0.00 2.01
334 335 1.673920 CTGTGGTTGCGTGGTTAAACT 59.326 47.619 0.00 0.00 0.00 2.66
335 336 1.671845 TGTGGTTGCGTGGTTAAACTC 59.328 47.619 0.00 0.00 0.00 3.01
336 337 1.944709 GTGGTTGCGTGGTTAAACTCT 59.055 47.619 0.00 0.00 0.00 3.24
337 338 1.944024 TGGTTGCGTGGTTAAACTCTG 59.056 47.619 0.00 0.00 0.00 3.35
338 339 1.944709 GGTTGCGTGGTTAAACTCTGT 59.055 47.619 0.00 0.00 0.00 3.41
339 340 2.032290 GGTTGCGTGGTTAAACTCTGTC 60.032 50.000 0.00 0.00 0.00 3.51
340 341 1.873698 TGCGTGGTTAAACTCTGTCC 58.126 50.000 0.00 0.00 0.00 4.02
341 342 1.414919 TGCGTGGTTAAACTCTGTCCT 59.585 47.619 0.00 0.00 0.00 3.85
342 343 2.158871 TGCGTGGTTAAACTCTGTCCTT 60.159 45.455 0.00 0.00 0.00 3.36
343 344 2.479275 GCGTGGTTAAACTCTGTCCTTC 59.521 50.000 0.00 0.00 0.00 3.46
344 345 3.724374 CGTGGTTAAACTCTGTCCTTCA 58.276 45.455 0.00 0.00 0.00 3.02
345 346 3.493503 CGTGGTTAAACTCTGTCCTTCAC 59.506 47.826 0.00 0.00 0.00 3.18
346 347 3.493503 GTGGTTAAACTCTGTCCTTCACG 59.506 47.826 0.00 0.00 0.00 4.35
347 348 3.385433 TGGTTAAACTCTGTCCTTCACGA 59.615 43.478 0.00 0.00 0.00 4.35
348 349 3.988517 GGTTAAACTCTGTCCTTCACGAG 59.011 47.826 0.00 0.00 0.00 4.18
350 351 0.969894 AACTCTGTCCTTCACGAGGG 59.030 55.000 0.00 0.00 46.31 4.30
351 352 0.112606 ACTCTGTCCTTCACGAGGGA 59.887 55.000 0.00 0.00 46.31 4.20
352 353 0.814457 CTCTGTCCTTCACGAGGGAG 59.186 60.000 0.00 0.00 46.31 4.30
353 354 0.612174 TCTGTCCTTCACGAGGGAGG 60.612 60.000 0.00 0.00 46.31 4.30
354 355 0.900647 CTGTCCTTCACGAGGGAGGT 60.901 60.000 0.00 0.00 46.31 3.85
355 356 0.406750 TGTCCTTCACGAGGGAGGTA 59.593 55.000 0.00 0.00 46.31 3.08
356 357 1.104630 GTCCTTCACGAGGGAGGTAG 58.895 60.000 0.00 0.00 46.31 3.18
357 358 0.033405 TCCTTCACGAGGGAGGTAGG 60.033 60.000 6.16 0.00 46.31 3.18
358 359 0.324460 CCTTCACGAGGGAGGTAGGT 60.324 60.000 0.00 0.00 42.26 3.08
359 360 0.818296 CTTCACGAGGGAGGTAGGTG 59.182 60.000 0.00 0.00 0.00 4.00
360 361 0.613853 TTCACGAGGGAGGTAGGTGG 60.614 60.000 0.00 0.00 0.00 4.61
361 362 1.305046 CACGAGGGAGGTAGGTGGT 60.305 63.158 0.00 0.00 0.00 4.16
362 363 0.903454 CACGAGGGAGGTAGGTGGTT 60.903 60.000 0.00 0.00 0.00 3.67
363 364 0.614134 ACGAGGGAGGTAGGTGGTTC 60.614 60.000 0.00 0.00 0.00 3.62
364 365 1.664321 CGAGGGAGGTAGGTGGTTCG 61.664 65.000 0.00 0.00 0.00 3.95
365 366 0.324091 GAGGGAGGTAGGTGGTTCGA 60.324 60.000 0.00 0.00 0.00 3.71
366 367 0.115745 AGGGAGGTAGGTGGTTCGAA 59.884 55.000 0.00 0.00 0.00 3.71
367 368 1.201424 GGGAGGTAGGTGGTTCGAAT 58.799 55.000 0.00 0.00 0.00 3.34
368 369 1.138464 GGGAGGTAGGTGGTTCGAATC 59.862 57.143 0.00 0.00 0.00 2.52
369 370 1.138464 GGAGGTAGGTGGTTCGAATCC 59.862 57.143 5.84 7.81 0.00 3.01
370 371 2.108970 GAGGTAGGTGGTTCGAATCCT 58.891 52.381 18.45 18.45 0.00 3.24
371 372 2.101082 GAGGTAGGTGGTTCGAATCCTC 59.899 54.545 18.12 13.53 34.48 3.71
372 373 2.108970 GGTAGGTGGTTCGAATCCTCT 58.891 52.381 18.12 12.37 0.00 3.69
373 374 2.500504 GGTAGGTGGTTCGAATCCTCTT 59.499 50.000 18.12 12.79 0.00 2.85
374 375 3.703052 GGTAGGTGGTTCGAATCCTCTTA 59.297 47.826 18.12 12.04 0.00 2.10
375 376 4.202131 GGTAGGTGGTTCGAATCCTCTTAG 60.202 50.000 18.12 0.00 0.00 2.18
376 377 2.168728 AGGTGGTTCGAATCCTCTTAGC 59.831 50.000 5.84 0.00 0.00 3.09
377 378 2.168728 GGTGGTTCGAATCCTCTTAGCT 59.831 50.000 5.84 0.00 0.00 3.32
378 379 3.449632 GTGGTTCGAATCCTCTTAGCTC 58.550 50.000 5.84 0.00 0.00 4.09
379 380 3.096852 TGGTTCGAATCCTCTTAGCTCA 58.903 45.455 5.84 0.00 0.00 4.26
380 381 3.119101 TGGTTCGAATCCTCTTAGCTCAC 60.119 47.826 5.84 0.00 0.00 3.51
381 382 3.119101 GGTTCGAATCCTCTTAGCTCACA 60.119 47.826 0.00 0.00 0.00 3.58
382 383 4.442192 GGTTCGAATCCTCTTAGCTCACAT 60.442 45.833 0.00 0.00 0.00 3.21
383 384 5.112686 GTTCGAATCCTCTTAGCTCACATT 58.887 41.667 0.00 0.00 0.00 2.71
384 385 5.344743 TCGAATCCTCTTAGCTCACATTT 57.655 39.130 0.00 0.00 0.00 2.32
385 386 5.734720 TCGAATCCTCTTAGCTCACATTTT 58.265 37.500 0.00 0.00 0.00 1.82
386 387 6.173339 TCGAATCCTCTTAGCTCACATTTTT 58.827 36.000 0.00 0.00 0.00 1.94
387 388 6.092670 TCGAATCCTCTTAGCTCACATTTTTG 59.907 38.462 0.00 0.00 0.00 2.44
388 389 5.573337 ATCCTCTTAGCTCACATTTTTGC 57.427 39.130 0.00 0.00 0.00 3.68
389 390 3.436704 TCCTCTTAGCTCACATTTTTGCG 59.563 43.478 0.00 0.00 0.00 4.85
390 391 3.426695 CCTCTTAGCTCACATTTTTGCGG 60.427 47.826 0.00 0.00 0.00 5.69
391 392 3.407698 TCTTAGCTCACATTTTTGCGGA 58.592 40.909 0.00 0.00 0.00 5.54
392 393 4.009675 TCTTAGCTCACATTTTTGCGGAT 58.990 39.130 0.00 0.00 0.00 4.18
393 394 4.458989 TCTTAGCTCACATTTTTGCGGATT 59.541 37.500 0.00 0.00 0.00 3.01
394 395 5.645929 TCTTAGCTCACATTTTTGCGGATTA 59.354 36.000 0.00 0.00 0.00 1.75
395 396 4.361451 AGCTCACATTTTTGCGGATTAG 57.639 40.909 0.00 0.00 0.00 1.73
396 397 4.009675 AGCTCACATTTTTGCGGATTAGA 58.990 39.130 0.00 0.00 0.00 2.10
397 398 4.098416 GCTCACATTTTTGCGGATTAGAC 58.902 43.478 0.00 0.00 0.00 2.59
398 399 4.379394 GCTCACATTTTTGCGGATTAGACA 60.379 41.667 0.00 0.00 0.00 3.41
399 400 5.041951 TCACATTTTTGCGGATTAGACAC 57.958 39.130 0.00 0.00 0.00 3.67
400 401 4.083003 TCACATTTTTGCGGATTAGACACC 60.083 41.667 0.00 0.00 0.00 4.16
401 402 3.823873 ACATTTTTGCGGATTAGACACCA 59.176 39.130 0.00 0.00 0.00 4.17
402 403 4.279671 ACATTTTTGCGGATTAGACACCAA 59.720 37.500 0.00 0.00 0.00 3.67
403 404 4.920640 TTTTTGCGGATTAGACACCAAA 57.079 36.364 0.00 0.00 0.00 3.28
404 405 5.461032 TTTTTGCGGATTAGACACCAAAT 57.539 34.783 0.00 0.00 0.00 2.32
405 406 6.576662 TTTTTGCGGATTAGACACCAAATA 57.423 33.333 0.00 0.00 0.00 1.40
406 407 6.576662 TTTTGCGGATTAGACACCAAATAA 57.423 33.333 0.00 0.00 0.00 1.40
407 408 6.576662 TTTGCGGATTAGACACCAAATAAA 57.423 33.333 0.00 0.00 0.00 1.40
408 409 6.576662 TTGCGGATTAGACACCAAATAAAA 57.423 33.333 0.00 0.00 0.00 1.52
429 430 2.626743 ACGGAATCGATAACTCCCGAAT 59.373 45.455 21.44 5.69 40.10 3.34
450 451 6.645003 CGAATGACCGGTATTTTCATATCTCA 59.355 38.462 7.34 0.00 29.64 3.27
454 455 6.934645 TGACCGGTATTTTCATATCTCATTCC 59.065 38.462 7.34 0.00 0.00 3.01
524 525 2.358615 TGCCACGTCATCCAGTGC 60.359 61.111 0.00 0.00 37.07 4.40
534 535 2.942796 ATCCAGTGCCGAGCGTTCA 61.943 57.895 0.00 0.00 0.00 3.18
549 550 0.039437 GTTCAGAGAAGCGGTCGTCA 60.039 55.000 0.00 0.00 0.00 4.35
550 551 0.888619 TTCAGAGAAGCGGTCGTCAT 59.111 50.000 0.00 0.00 0.00 3.06
554 555 1.478510 AGAGAAGCGGTCGTCATGAAT 59.521 47.619 0.00 0.00 0.00 2.57
568 569 0.631212 ATGAATGAACCCCACTCCCC 59.369 55.000 0.00 0.00 0.00 4.81
599 600 0.396139 CCCACTCCATTCCCCACATG 60.396 60.000 0.00 0.00 0.00 3.21
914 970 1.023513 GCTGCCATTGCGAGAAGAGT 61.024 55.000 0.00 0.00 41.78 3.24
922 978 1.338107 TGCGAGAAGAGTCCCTTTCA 58.662 50.000 0.00 0.00 34.68 2.69
930 986 1.536662 AGTCCCTTTCAGCTCCGGT 60.537 57.895 0.00 0.00 0.00 5.28
1073 1129 1.740332 GCTTCCGTCCTAGAGCTCCC 61.740 65.000 10.93 0.00 32.54 4.30
1284 1354 3.781307 CCCCCACGATCGAGCCAA 61.781 66.667 24.34 0.00 0.00 4.52
1818 2296 6.866248 CCATGGCAATTTTTAGTTTAACTCGT 59.134 34.615 0.00 0.00 0.00 4.18
2210 2701 4.391216 TCGCCATGGCATTTTAAAATGTTG 59.609 37.500 34.93 25.76 45.77 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 8.961294 TCCAATTTCAATGAACTGTTTTCAAT 57.039 26.923 0.00 0.00 31.55 2.57
31 32 8.783833 TTCCAATTTCAATGAACTGTTTTCAA 57.216 26.923 0.00 0.00 31.55 2.69
32 33 8.783833 TTTCCAATTTCAATGAACTGTTTTCA 57.216 26.923 0.00 0.00 0.00 2.69
141 142 8.981647 CATTTTCTTCAAATCGATGACCTTTTT 58.018 29.630 0.00 0.00 32.24 1.94
142 143 8.143835 ACATTTTCTTCAAATCGATGACCTTTT 58.856 29.630 0.00 0.00 32.24 2.27
143 144 7.661040 ACATTTTCTTCAAATCGATGACCTTT 58.339 30.769 0.00 0.00 32.24 3.11
144 145 7.219484 ACATTTTCTTCAAATCGATGACCTT 57.781 32.000 0.00 0.00 32.24 3.50
145 146 6.824305 ACATTTTCTTCAAATCGATGACCT 57.176 33.333 0.00 0.00 32.24 3.85
146 147 6.249260 CGAACATTTTCTTCAAATCGATGACC 59.751 38.462 0.00 0.00 32.24 4.02
147 148 6.797033 ACGAACATTTTCTTCAAATCGATGAC 59.203 34.615 0.00 0.00 32.24 3.06
148 149 6.796552 CACGAACATTTTCTTCAAATCGATGA 59.203 34.615 0.00 0.00 32.24 2.92
149 150 6.578545 ACACGAACATTTTCTTCAAATCGATG 59.421 34.615 0.00 0.00 32.24 3.84
150 151 6.668323 ACACGAACATTTTCTTCAAATCGAT 58.332 32.000 0.00 0.00 32.24 3.59
151 152 6.055231 ACACGAACATTTTCTTCAAATCGA 57.945 33.333 0.00 0.00 32.24 3.59
152 153 8.434870 AATACACGAACATTTTCTTCAAATCG 57.565 30.769 0.00 0.00 32.24 3.34
153 154 9.993881 CAAATACACGAACATTTTCTTCAAATC 57.006 29.630 0.00 0.00 32.24 2.17
154 155 8.487176 GCAAATACACGAACATTTTCTTCAAAT 58.513 29.630 0.00 0.00 35.24 2.32
155 156 7.489435 TGCAAATACACGAACATTTTCTTCAAA 59.511 29.630 0.00 0.00 0.00 2.69
156 157 6.975197 TGCAAATACACGAACATTTTCTTCAA 59.025 30.769 0.00 0.00 0.00 2.69
157 158 6.499172 TGCAAATACACGAACATTTTCTTCA 58.501 32.000 0.00 0.00 0.00 3.02
158 159 6.984740 TGCAAATACACGAACATTTTCTTC 57.015 33.333 0.00 0.00 0.00 2.87
159 160 7.276658 TGTTTGCAAATACACGAACATTTTCTT 59.723 29.630 16.21 0.00 35.69 2.52
160 161 6.754209 TGTTTGCAAATACACGAACATTTTCT 59.246 30.769 16.21 0.00 35.69 2.52
161 162 6.927746 TGTTTGCAAATACACGAACATTTTC 58.072 32.000 16.21 0.00 35.69 2.29
162 163 6.893958 TGTTTGCAAATACACGAACATTTT 57.106 29.167 16.21 0.00 35.69 1.82
163 164 6.893958 TTGTTTGCAAATACACGAACATTT 57.106 29.167 16.21 0.00 39.34 2.32
164 165 6.893958 TTTGTTTGCAAATACACGAACATT 57.106 29.167 16.21 0.00 39.34 2.71
177 178 4.686972 TGGAACGATGAATTTGTTTGCAA 58.313 34.783 0.00 0.00 31.74 4.08
178 179 4.313277 TGGAACGATGAATTTGTTTGCA 57.687 36.364 0.00 0.00 31.74 4.08
179 180 4.981674 TCTTGGAACGATGAATTTGTTTGC 59.018 37.500 0.00 0.00 31.74 3.68
180 181 5.976534 TGTCTTGGAACGATGAATTTGTTTG 59.023 36.000 0.00 0.00 31.74 2.93
181 182 6.142818 TGTCTTGGAACGATGAATTTGTTT 57.857 33.333 0.00 0.00 31.74 2.83
182 183 5.766150 TGTCTTGGAACGATGAATTTGTT 57.234 34.783 0.00 0.00 34.45 2.83
183 184 5.766150 TTGTCTTGGAACGATGAATTTGT 57.234 34.783 0.00 0.00 0.00 2.83
184 185 6.437928 TCTTTGTCTTGGAACGATGAATTTG 58.562 36.000 0.00 0.00 0.00 2.32
185 186 6.633500 TCTTTGTCTTGGAACGATGAATTT 57.367 33.333 0.00 0.00 0.00 1.82
186 187 6.633500 TTCTTTGTCTTGGAACGATGAATT 57.367 33.333 0.00 0.00 0.00 2.17
187 188 6.633500 TTTCTTTGTCTTGGAACGATGAAT 57.367 33.333 0.00 0.00 30.86 2.57
188 189 6.443934 TTTTCTTTGTCTTGGAACGATGAA 57.556 33.333 0.00 0.00 0.00 2.57
189 190 6.443934 TTTTTCTTTGTCTTGGAACGATGA 57.556 33.333 0.00 0.00 0.00 2.92
256 257 9.635520 TCTATTATTCGTTCTTCGTTCTTCTTT 57.364 29.630 0.00 0.00 40.80 2.52
257 258 9.074443 GTCTATTATTCGTTCTTCGTTCTTCTT 57.926 33.333 0.00 0.00 40.80 2.52
258 259 7.428761 CGTCTATTATTCGTTCTTCGTTCTTCT 59.571 37.037 0.00 0.00 40.80 2.85
259 260 7.427606 TCGTCTATTATTCGTTCTTCGTTCTTC 59.572 37.037 0.00 0.00 40.80 2.87
260 261 7.246311 TCGTCTATTATTCGTTCTTCGTTCTT 58.754 34.615 0.00 0.00 40.80 2.52
261 262 6.779117 TCGTCTATTATTCGTTCTTCGTTCT 58.221 36.000 0.00 0.00 40.80 3.01
262 263 7.428562 TTCGTCTATTATTCGTTCTTCGTTC 57.571 36.000 0.00 0.00 40.80 3.95
263 264 7.801547 TTTCGTCTATTATTCGTTCTTCGTT 57.198 32.000 0.00 0.00 40.80 3.85
264 265 7.801547 TTTTCGTCTATTATTCGTTCTTCGT 57.198 32.000 0.00 0.00 40.80 3.85
286 287 7.127686 CGAGACGTGGTTATGTTTTACTTTTT 58.872 34.615 0.00 0.00 0.00 1.94
287 288 6.293027 CCGAGACGTGGTTATGTTTTACTTTT 60.293 38.462 0.00 0.00 0.00 2.27
288 289 5.178067 CCGAGACGTGGTTATGTTTTACTTT 59.822 40.000 0.00 0.00 0.00 2.66
289 290 4.687483 CCGAGACGTGGTTATGTTTTACTT 59.313 41.667 0.00 0.00 0.00 2.24
290 291 4.240096 CCGAGACGTGGTTATGTTTTACT 58.760 43.478 0.00 0.00 0.00 2.24
291 292 3.989817 ACCGAGACGTGGTTATGTTTTAC 59.010 43.478 0.00 0.00 35.82 2.01
292 293 4.022068 AGACCGAGACGTGGTTATGTTTTA 60.022 41.667 0.00 0.00 40.63 1.52
293 294 3.062042 GACCGAGACGTGGTTATGTTTT 58.938 45.455 0.00 0.00 40.63 2.43
294 295 2.298163 AGACCGAGACGTGGTTATGTTT 59.702 45.455 0.00 0.00 40.63 2.83
295 296 1.891150 AGACCGAGACGTGGTTATGTT 59.109 47.619 0.00 0.00 40.63 2.71
296 297 1.201647 CAGACCGAGACGTGGTTATGT 59.798 52.381 0.00 0.00 40.63 2.29
297 298 1.201647 ACAGACCGAGACGTGGTTATG 59.798 52.381 0.00 0.30 40.63 1.90
298 299 1.201647 CACAGACCGAGACGTGGTTAT 59.798 52.381 0.00 0.00 40.63 1.89
299 300 0.594602 CACAGACCGAGACGTGGTTA 59.405 55.000 0.00 0.00 40.63 2.85
300 301 1.362717 CACAGACCGAGACGTGGTT 59.637 57.895 0.00 0.00 40.63 3.67
301 302 2.561956 CCACAGACCGAGACGTGGT 61.562 63.158 0.00 0.00 43.23 4.16
302 303 2.258591 CCACAGACCGAGACGTGG 59.741 66.667 0.00 0.00 42.72 4.94
303 304 0.939577 CAACCACAGACCGAGACGTG 60.940 60.000 0.00 0.00 0.00 4.49
304 305 1.362717 CAACCACAGACCGAGACGT 59.637 57.895 0.00 0.00 0.00 4.34
305 306 2.022129 GCAACCACAGACCGAGACG 61.022 63.158 0.00 0.00 0.00 4.18
306 307 2.022129 CGCAACCACAGACCGAGAC 61.022 63.158 0.00 0.00 0.00 3.36
307 308 2.338620 CGCAACCACAGACCGAGA 59.661 61.111 0.00 0.00 0.00 4.04
308 309 2.029073 ACGCAACCACAGACCGAG 59.971 61.111 0.00 0.00 0.00 4.63
309 310 2.279851 CACGCAACCACAGACCGA 60.280 61.111 0.00 0.00 0.00 4.69
310 311 3.345808 CCACGCAACCACAGACCG 61.346 66.667 0.00 0.00 0.00 4.79
311 312 0.533308 TAACCACGCAACCACAGACC 60.533 55.000 0.00 0.00 0.00 3.85
312 313 1.301423 TTAACCACGCAACCACAGAC 58.699 50.000 0.00 0.00 0.00 3.51
313 314 1.671845 GTTTAACCACGCAACCACAGA 59.328 47.619 0.00 0.00 0.00 3.41
314 315 1.673920 AGTTTAACCACGCAACCACAG 59.326 47.619 0.00 0.00 0.00 3.66
315 316 1.671845 GAGTTTAACCACGCAACCACA 59.328 47.619 0.00 0.00 0.00 4.17
316 317 1.944709 AGAGTTTAACCACGCAACCAC 59.055 47.619 0.00 0.00 0.00 4.16
317 318 1.944024 CAGAGTTTAACCACGCAACCA 59.056 47.619 0.00 0.00 0.00 3.67
318 319 1.944709 ACAGAGTTTAACCACGCAACC 59.055 47.619 0.00 0.00 0.00 3.77
319 320 2.032290 GGACAGAGTTTAACCACGCAAC 60.032 50.000 0.00 0.00 0.00 4.17
320 321 2.158871 AGGACAGAGTTTAACCACGCAA 60.159 45.455 0.00 0.00 0.00 4.85
321 322 1.414919 AGGACAGAGTTTAACCACGCA 59.585 47.619 0.00 0.00 0.00 5.24
322 323 2.165319 AGGACAGAGTTTAACCACGC 57.835 50.000 0.00 0.00 0.00 5.34
323 324 3.493503 GTGAAGGACAGAGTTTAACCACG 59.506 47.826 0.00 0.00 0.00 4.94
324 325 3.493503 CGTGAAGGACAGAGTTTAACCAC 59.506 47.826 0.00 0.00 0.00 4.16
325 326 3.385433 TCGTGAAGGACAGAGTTTAACCA 59.615 43.478 0.00 0.00 0.00 3.67
326 327 3.986277 TCGTGAAGGACAGAGTTTAACC 58.014 45.455 0.00 0.00 0.00 2.85
339 340 0.324460 ACCTACCTCCCTCGTGAAGG 60.324 60.000 4.84 4.84 45.77 3.46
340 341 0.818296 CACCTACCTCCCTCGTGAAG 59.182 60.000 0.00 0.00 0.00 3.02
341 342 0.613853 CCACCTACCTCCCTCGTGAA 60.614 60.000 0.00 0.00 0.00 3.18
342 343 1.000019 CCACCTACCTCCCTCGTGA 60.000 63.158 0.00 0.00 0.00 4.35
343 344 0.903454 AACCACCTACCTCCCTCGTG 60.903 60.000 0.00 0.00 0.00 4.35
344 345 0.614134 GAACCACCTACCTCCCTCGT 60.614 60.000 0.00 0.00 0.00 4.18
345 346 1.664321 CGAACCACCTACCTCCCTCG 61.664 65.000 0.00 0.00 0.00 4.63
346 347 0.324091 TCGAACCACCTACCTCCCTC 60.324 60.000 0.00 0.00 0.00 4.30
347 348 0.115745 TTCGAACCACCTACCTCCCT 59.884 55.000 0.00 0.00 0.00 4.20
348 349 1.138464 GATTCGAACCACCTACCTCCC 59.862 57.143 0.00 0.00 0.00 4.30
349 350 1.138464 GGATTCGAACCACCTACCTCC 59.862 57.143 0.00 0.00 0.00 4.30
350 351 2.101082 GAGGATTCGAACCACCTACCTC 59.899 54.545 16.68 13.56 36.41 3.85
351 352 2.108970 GAGGATTCGAACCACCTACCT 58.891 52.381 16.68 9.82 32.53 3.08
352 353 2.108970 AGAGGATTCGAACCACCTACC 58.891 52.381 16.68 8.57 32.53 3.18
353 354 3.889520 AAGAGGATTCGAACCACCTAC 57.110 47.619 16.68 11.82 32.53 3.18
354 355 3.383825 GCTAAGAGGATTCGAACCACCTA 59.616 47.826 16.68 6.44 32.53 3.08
355 356 2.168728 GCTAAGAGGATTCGAACCACCT 59.831 50.000 16.67 16.67 35.29 4.00
356 357 2.168728 AGCTAAGAGGATTCGAACCACC 59.831 50.000 15.94 12.63 0.00 4.61
357 358 3.119101 TGAGCTAAGAGGATTCGAACCAC 60.119 47.826 15.94 11.12 0.00 4.16
358 359 3.096852 TGAGCTAAGAGGATTCGAACCA 58.903 45.455 15.94 0.00 0.00 3.67
359 360 3.119101 TGTGAGCTAAGAGGATTCGAACC 60.119 47.826 0.00 4.22 0.00 3.62
360 361 4.111375 TGTGAGCTAAGAGGATTCGAAC 57.889 45.455 0.00 0.00 0.00 3.95
361 362 5.344743 AATGTGAGCTAAGAGGATTCGAA 57.655 39.130 0.00 0.00 0.00 3.71
362 363 5.344743 AAATGTGAGCTAAGAGGATTCGA 57.655 39.130 0.00 0.00 0.00 3.71
363 364 6.253746 CAAAAATGTGAGCTAAGAGGATTCG 58.746 40.000 0.00 0.00 0.00 3.34
364 365 6.032717 GCAAAAATGTGAGCTAAGAGGATTC 58.967 40.000 0.00 0.00 0.00 2.52
365 366 5.392380 CGCAAAAATGTGAGCTAAGAGGATT 60.392 40.000 0.00 0.00 0.00 3.01
366 367 4.095483 CGCAAAAATGTGAGCTAAGAGGAT 59.905 41.667 0.00 0.00 0.00 3.24
367 368 3.436704 CGCAAAAATGTGAGCTAAGAGGA 59.563 43.478 0.00 0.00 0.00 3.71
368 369 3.426695 CCGCAAAAATGTGAGCTAAGAGG 60.427 47.826 0.00 0.00 0.00 3.69
369 370 3.436704 TCCGCAAAAATGTGAGCTAAGAG 59.563 43.478 0.00 0.00 0.00 2.85
370 371 3.407698 TCCGCAAAAATGTGAGCTAAGA 58.592 40.909 0.00 0.00 0.00 2.10
371 372 3.829886 TCCGCAAAAATGTGAGCTAAG 57.170 42.857 0.00 0.00 0.00 2.18
372 373 4.782019 AATCCGCAAAAATGTGAGCTAA 57.218 36.364 0.00 0.00 0.00 3.09
373 374 5.064707 GTCTAATCCGCAAAAATGTGAGCTA 59.935 40.000 0.00 0.00 0.00 3.32
374 375 4.009675 TCTAATCCGCAAAAATGTGAGCT 58.990 39.130 0.00 0.00 0.00 4.09
375 376 4.098416 GTCTAATCCGCAAAAATGTGAGC 58.902 43.478 0.00 0.00 0.00 4.26
376 377 5.088739 GTGTCTAATCCGCAAAAATGTGAG 58.911 41.667 0.00 0.00 0.00 3.51
377 378 4.083003 GGTGTCTAATCCGCAAAAATGTGA 60.083 41.667 0.00 0.00 0.00 3.58
378 379 4.165779 GGTGTCTAATCCGCAAAAATGTG 58.834 43.478 0.00 0.00 0.00 3.21
379 380 3.823873 TGGTGTCTAATCCGCAAAAATGT 59.176 39.130 0.00 0.00 0.00 2.71
380 381 4.433186 TGGTGTCTAATCCGCAAAAATG 57.567 40.909 0.00 0.00 0.00 2.32
381 382 5.461032 TTTGGTGTCTAATCCGCAAAAAT 57.539 34.783 0.00 0.00 0.00 1.82
382 383 4.920640 TTTGGTGTCTAATCCGCAAAAA 57.079 36.364 0.00 0.00 0.00 1.94
383 384 6.576662 TTATTTGGTGTCTAATCCGCAAAA 57.423 33.333 0.00 0.00 0.00 2.44
384 385 6.576662 TTTATTTGGTGTCTAATCCGCAAA 57.423 33.333 0.00 0.00 0.00 3.68
385 386 6.383415 GTTTTATTTGGTGTCTAATCCGCAA 58.617 36.000 0.00 0.00 0.00 4.85
386 387 5.391097 CGTTTTATTTGGTGTCTAATCCGCA 60.391 40.000 0.00 0.00 0.00 5.69
387 388 5.025826 CGTTTTATTTGGTGTCTAATCCGC 58.974 41.667 0.00 0.00 0.00 5.54
388 389 5.352016 TCCGTTTTATTTGGTGTCTAATCCG 59.648 40.000 0.00 0.00 0.00 4.18
389 390 6.746745 TCCGTTTTATTTGGTGTCTAATCC 57.253 37.500 0.00 0.00 0.00 3.01
390 391 7.638683 CGATTCCGTTTTATTTGGTGTCTAATC 59.361 37.037 0.00 0.00 0.00 1.75
391 392 7.334921 TCGATTCCGTTTTATTTGGTGTCTAAT 59.665 33.333 0.00 0.00 37.05 1.73
392 393 6.649973 TCGATTCCGTTTTATTTGGTGTCTAA 59.350 34.615 0.00 0.00 37.05 2.10
393 394 6.164876 TCGATTCCGTTTTATTTGGTGTCTA 58.835 36.000 0.00 0.00 37.05 2.59
394 395 4.998672 TCGATTCCGTTTTATTTGGTGTCT 59.001 37.500 0.00 0.00 37.05 3.41
395 396 5.285798 TCGATTCCGTTTTATTTGGTGTC 57.714 39.130 0.00 0.00 37.05 3.67
396 397 5.890424 ATCGATTCCGTTTTATTTGGTGT 57.110 34.783 0.00 0.00 37.05 4.16
397 398 7.469260 AGTTATCGATTCCGTTTTATTTGGTG 58.531 34.615 1.71 0.00 37.05 4.17
398 399 7.201670 GGAGTTATCGATTCCGTTTTATTTGGT 60.202 37.037 1.71 0.00 37.05 3.67
399 400 7.130269 GGAGTTATCGATTCCGTTTTATTTGG 58.870 38.462 1.71 0.00 37.05 3.28
400 401 7.130269 GGGAGTTATCGATTCCGTTTTATTTG 58.870 38.462 1.71 0.00 35.06 2.32
401 402 6.018507 CGGGAGTTATCGATTCCGTTTTATTT 60.019 38.462 1.71 0.00 35.06 1.40
402 403 5.464389 CGGGAGTTATCGATTCCGTTTTATT 59.536 40.000 1.71 0.00 35.06 1.40
403 404 4.986659 CGGGAGTTATCGATTCCGTTTTAT 59.013 41.667 1.71 0.00 35.06 1.40
404 405 4.097741 TCGGGAGTTATCGATTCCGTTTTA 59.902 41.667 1.71 0.00 38.70 1.52
405 406 3.119029 TCGGGAGTTATCGATTCCGTTTT 60.119 43.478 1.71 0.00 38.70 2.43
406 407 2.428171 TCGGGAGTTATCGATTCCGTTT 59.572 45.455 1.71 0.00 38.70 3.60
407 408 2.026641 TCGGGAGTTATCGATTCCGTT 58.973 47.619 1.71 0.00 38.70 4.44
408 409 1.683943 TCGGGAGTTATCGATTCCGT 58.316 50.000 1.71 0.00 38.70 4.69
429 430 6.934645 GGAATGAGATATGAAAATACCGGTCA 59.065 38.462 12.40 1.81 0.00 4.02
444 445 3.060978 CGACACGTTCGGAATGAGATA 57.939 47.619 16.46 0.00 44.60 1.98
524 525 2.155194 CGCTTCTCTGAACGCTCGG 61.155 63.158 0.00 0.00 0.00 4.63
534 535 0.888619 TTCATGACGACCGCTTCTCT 59.111 50.000 0.00 0.00 0.00 3.10
549 550 0.631212 GGGGAGTGGGGTTCATTCAT 59.369 55.000 0.00 0.00 34.25 2.57
550 551 0.477597 AGGGGAGTGGGGTTCATTCA 60.478 55.000 0.00 0.00 34.25 2.57
554 555 0.327191 GGATAGGGGAGTGGGGTTCA 60.327 60.000 0.00 0.00 0.00 3.18
568 569 2.694397 TGGAGTGGGGAGAATGGATAG 58.306 52.381 0.00 0.00 0.00 2.08
599 600 4.918201 CGGCCAGGAGGATTCGGC 62.918 72.222 2.24 0.00 44.10 5.54
696 697 2.098233 GCGCGGATCCGAAGAACAA 61.098 57.895 37.64 0.00 42.83 2.83
914 970 2.592993 CCACCGGAGCTGAAAGGGA 61.593 63.158 9.46 0.00 0.00 4.20
922 978 3.083997 GGGATCACCACCGGAGCT 61.084 66.667 9.46 0.00 39.85 4.09
930 986 2.354729 CGGCAAAGGGGATCACCA 59.645 61.111 18.46 0.00 42.91 4.17
1202 1259 1.069823 CCGCAACTCATCCTCTAGCAT 59.930 52.381 0.00 0.00 0.00 3.79
1284 1354 0.321122 GCAGCAGTAGCAGTTCCTGT 60.321 55.000 0.00 0.00 45.49 4.00
1691 1788 7.670009 CAAAAATGGAATACTTTTGCCATGA 57.330 32.000 0.00 0.00 40.09 3.07


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

AutoCloner maintained by Alex Coulton.