Multiple sequence alignment - TraesCS7D01G095400

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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 TraesCS7D01G095400 chr7D 100.000 2614 0 0 1 2614 58132337 58129724 0.000000e+00 4828
1 TraesCS7D01G095400 chr7D 95.635 1787 59 8 587 2358 127375811 127377593 0.000000e+00 2850
2 TraesCS7D01G095400 chr7D 94.891 274 13 1 2342 2614 127377756 127378029 6.690000e-116 427
3 TraesCS7D01G095400 chr2D 98.255 1777 22 4 587 2356 345251459 345253233 0.000000e+00 3101
4 TraesCS7D01G095400 chr2D 97.546 1793 29 4 587 2365 639485012 639483221 0.000000e+00 3053
5 TraesCS7D01G095400 chr2D 80.268 745 138 8 877 1615 37276739 37275998 1.060000e-153 553
6 TraesCS7D01G095400 chr2D 98.175 274 4 1 2342 2614 345253398 345253671 6.550000e-131 477
7 TraesCS7D01G095400 chr2D 96.715 274 8 1 2342 2614 639483065 639482792 3.070000e-124 455
8 TraesCS7D01G095400 chr1D 98.151 1785 18 4 586 2356 182580740 182582523 0.000000e+00 3099
9 TraesCS7D01G095400 chr1D 97.365 1784 32 5 587 2356 71287178 71288960 0.000000e+00 3020
10 TraesCS7D01G095400 chr1D 98.175 274 4 1 2342 2614 182582688 182582961 6.550000e-131 477
11 TraesCS7D01G095400 chr1D 97.445 274 6 1 2342 2614 71289125 71289398 1.420000e-127 466
12 TraesCS7D01G095400 chr5D 97.368 1786 32 4 587 2358 42206482 42208266 0.000000e+00 3024
13 TraesCS7D01G095400 chr5D 97.080 274 7 1 2342 2614 42208429 42208702 6.590000e-126 460
14 TraesCS7D01G095400 chr1A 88.939 1781 145 29 588 2358 546519079 546520817 0.000000e+00 2150
15 TraesCS7D01G095400 chr1A 88.430 242 26 2 2370 2610 546520967 546521207 9.150000e-75 291
16 TraesCS7D01G095400 chr2A 88.036 1237 114 25 1128 2358 32113979 32115187 0.000000e+00 1434
17 TraesCS7D01G095400 chr2A 90.618 437 33 3 584 1013 32113531 32113966 8.110000e-160 573
18 TraesCS7D01G095400 chr2A 86.992 246 30 2 2370 2614 32115337 32115581 2.560000e-70 276
19 TraesCS7D01G095400 chr4A 85.897 468 41 13 120 570 673804472 673804931 2.350000e-130 475
20 TraesCS7D01G095400 chr4A 92.381 105 7 1 2 106 673804384 673804487 5.830000e-32 148
21 TraesCS7D01G095400 chr4A 82.609 92 9 2 120 205 673772858 673772768 1.000000e-09 75


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 TraesCS7D01G095400 chr7D 58129724 58132337 2613 True 4828.0 4828 100.000000 1 2614 1 chr7D.!!$R1 2613
1 TraesCS7D01G095400 chr7D 127375811 127378029 2218 False 1638.5 2850 95.263000 587 2614 2 chr7D.!!$F1 2027
2 TraesCS7D01G095400 chr2D 345251459 345253671 2212 False 1789.0 3101 98.215000 587 2614 2 chr2D.!!$F1 2027
3 TraesCS7D01G095400 chr2D 639482792 639485012 2220 True 1754.0 3053 97.130500 587 2614 2 chr2D.!!$R2 2027
4 TraesCS7D01G095400 chr2D 37275998 37276739 741 True 553.0 553 80.268000 877 1615 1 chr2D.!!$R1 738
5 TraesCS7D01G095400 chr1D 182580740 182582961 2221 False 1788.0 3099 98.163000 586 2614 2 chr1D.!!$F2 2028
6 TraesCS7D01G095400 chr1D 71287178 71289398 2220 False 1743.0 3020 97.405000 587 2614 2 chr1D.!!$F1 2027
7 TraesCS7D01G095400 chr5D 42206482 42208702 2220 False 1742.0 3024 97.224000 587 2614 2 chr5D.!!$F1 2027
8 TraesCS7D01G095400 chr1A 546519079 546521207 2128 False 1220.5 2150 88.684500 588 2610 2 chr1A.!!$F1 2022
9 TraesCS7D01G095400 chr2A 32113531 32115581 2050 False 761.0 1434 88.548667 584 2614 3 chr2A.!!$F1 2030
10 TraesCS7D01G095400 chr4A 673804384 673804931 547 False 311.5 475 89.139000 2 570 2 chr4A.!!$F1 568

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
257 258 0.099968 CGATGAGGCGTCCTTTCGTA 59.90 55.0 16.53 0.0 35.95 3.43 F
446 447 0.250252 TGAGCGCACATGTCCTTTGA 60.25 50.0 11.47 0.0 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1253 1265 1.379044 GCCTTGCTGCCACCTGTAT 60.379 57.895 0.0 0.0 0.00 2.29 R
1654 1701 9.915629 CATAACACTAAGCCTAATCCTACTTAG 57.084 37.037 7.0 7.0 44.57 2.18 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
114 115 8.352201 TGGGATAAGATTATCATTTCTTTTGCG 58.648 33.333 13.18 0.00 40.98 4.85
115 116 8.567948 GGGATAAGATTATCATTTCTTTTGCGA 58.432 33.333 13.18 0.00 40.98 5.10
155 156 8.089625 TCATTAGAACTTCCTCCATATGTTGA 57.910 34.615 1.24 0.00 0.00 3.18
158 159 5.605534 AGAACTTCCTCCATATGTTGATCG 58.394 41.667 1.24 0.00 0.00 3.69
170 171 9.639601 TCCATATGTTGATCGTAATAACATCTC 57.360 33.333 10.63 0.00 42.28 2.75
199 200 2.904434 AGGACACGGATGGAGTAACTTT 59.096 45.455 0.00 0.00 0.00 2.66
200 201 3.326880 AGGACACGGATGGAGTAACTTTT 59.673 43.478 0.00 0.00 0.00 2.27
201 202 3.435671 GGACACGGATGGAGTAACTTTTG 59.564 47.826 0.00 0.00 0.00 2.44
202 203 4.062991 GACACGGATGGAGTAACTTTTGT 58.937 43.478 0.00 0.00 0.00 2.83
203 204 3.813166 ACACGGATGGAGTAACTTTTGTG 59.187 43.478 0.00 0.00 0.00 3.33
204 205 3.188460 CACGGATGGAGTAACTTTTGTGG 59.812 47.826 0.00 0.00 0.00 4.17
205 206 3.181448 ACGGATGGAGTAACTTTTGTGGT 60.181 43.478 0.00 0.00 0.00 4.16
206 207 3.435671 CGGATGGAGTAACTTTTGTGGTC 59.564 47.826 0.00 0.00 0.00 4.02
207 208 4.394729 GGATGGAGTAACTTTTGTGGTCA 58.605 43.478 0.00 0.00 0.00 4.02
208 209 4.825085 GGATGGAGTAACTTTTGTGGTCAA 59.175 41.667 0.00 0.00 0.00 3.18
209 210 5.300792 GGATGGAGTAACTTTTGTGGTCAAA 59.699 40.000 0.00 0.00 41.10 2.69
210 211 6.183360 GGATGGAGTAACTTTTGTGGTCAAAA 60.183 38.462 6.09 6.09 46.84 2.44
222 223 7.639113 TTTGTGGTCAAAATTCTCTAAGTGT 57.361 32.000 0.00 0.00 40.08 3.55
223 224 6.861065 TGTGGTCAAAATTCTCTAAGTGTC 57.139 37.500 0.00 0.00 0.00 3.67
224 225 6.591935 TGTGGTCAAAATTCTCTAAGTGTCT 58.408 36.000 0.00 0.00 0.00 3.41
225 226 7.732025 TGTGGTCAAAATTCTCTAAGTGTCTA 58.268 34.615 0.00 0.00 0.00 2.59
226 227 8.375506 TGTGGTCAAAATTCTCTAAGTGTCTAT 58.624 33.333 0.00 0.00 0.00 1.98
227 228 8.660373 GTGGTCAAAATTCTCTAAGTGTCTATG 58.340 37.037 0.00 0.00 0.00 2.23
228 229 7.334421 TGGTCAAAATTCTCTAAGTGTCTATGC 59.666 37.037 0.00 0.00 0.00 3.14
229 230 7.334421 GGTCAAAATTCTCTAAGTGTCTATGCA 59.666 37.037 0.00 0.00 0.00 3.96
230 231 8.721478 GTCAAAATTCTCTAAGTGTCTATGCAA 58.279 33.333 0.00 0.00 0.00 4.08
231 232 8.721478 TCAAAATTCTCTAAGTGTCTATGCAAC 58.279 33.333 0.00 0.00 0.00 4.17
232 233 8.506437 CAAAATTCTCTAAGTGTCTATGCAACA 58.494 33.333 0.00 0.00 0.00 3.33
233 234 8.798859 AAATTCTCTAAGTGTCTATGCAACAT 57.201 30.769 0.00 0.00 0.00 2.71
234 235 7.783090 ATTCTCTAAGTGTCTATGCAACATG 57.217 36.000 0.00 0.00 0.00 3.21
235 236 5.664457 TCTCTAAGTGTCTATGCAACATGG 58.336 41.667 0.00 0.00 0.00 3.66
236 237 4.191544 TCTAAGTGTCTATGCAACATGGC 58.808 43.478 0.00 0.00 0.00 4.40
243 244 4.393693 TGCAACATGGCACGATGA 57.606 50.000 0.00 0.00 39.25 2.92
244 245 2.173433 TGCAACATGGCACGATGAG 58.827 52.632 0.00 0.00 39.25 2.90
245 246 1.307355 TGCAACATGGCACGATGAGG 61.307 55.000 0.00 0.00 39.25 3.86
246 247 1.430632 CAACATGGCACGATGAGGC 59.569 57.895 0.00 0.00 0.00 4.70
247 248 2.108514 AACATGGCACGATGAGGCG 61.109 57.895 0.00 0.00 37.29 5.52
248 249 2.512286 CATGGCACGATGAGGCGT 60.512 61.111 0.00 0.00 46.88 5.68
249 250 2.202932 ATGGCACGATGAGGCGTC 60.203 61.111 0.00 0.00 43.59 5.19
250 251 3.740128 ATGGCACGATGAGGCGTCC 62.740 63.158 3.56 0.00 43.59 4.79
251 252 4.148825 GGCACGATGAGGCGTCCT 62.149 66.667 3.56 0.00 43.59 3.85
252 253 2.125512 GCACGATGAGGCGTCCTT 60.126 61.111 3.56 0.00 43.59 3.36
253 254 1.741770 GCACGATGAGGCGTCCTTT 60.742 57.895 3.56 0.00 43.59 3.11
254 255 1.696832 GCACGATGAGGCGTCCTTTC 61.697 60.000 3.56 0.00 43.59 2.62
255 256 1.153823 ACGATGAGGCGTCCTTTCG 60.154 57.895 20.04 20.04 41.22 3.46
256 257 1.153823 CGATGAGGCGTCCTTTCGT 60.154 57.895 16.53 0.00 35.95 3.85
257 258 0.099968 CGATGAGGCGTCCTTTCGTA 59.900 55.000 16.53 0.00 35.95 3.43
258 259 1.269102 CGATGAGGCGTCCTTTCGTAT 60.269 52.381 16.53 0.00 35.95 3.06
259 260 2.395654 GATGAGGCGTCCTTTCGTATC 58.604 52.381 3.56 0.00 31.76 2.24
260 261 0.458669 TGAGGCGTCCTTTCGTATCC 59.541 55.000 3.56 0.00 31.76 2.59
261 262 0.594284 GAGGCGTCCTTTCGTATCCG 60.594 60.000 0.00 0.00 31.76 4.18
262 263 1.033746 AGGCGTCCTTTCGTATCCGA 61.034 55.000 0.00 0.00 42.41 4.55
278 279 1.533625 CCGAAGGCATCTTTTGGTCA 58.466 50.000 0.00 0.00 46.14 4.02
279 280 2.094675 CCGAAGGCATCTTTTGGTCAT 58.905 47.619 0.00 0.00 46.14 3.06
280 281 3.278574 CCGAAGGCATCTTTTGGTCATA 58.721 45.455 0.00 0.00 46.14 2.15
281 282 3.885297 CCGAAGGCATCTTTTGGTCATAT 59.115 43.478 0.00 0.00 46.14 1.78
282 283 4.339247 CCGAAGGCATCTTTTGGTCATATT 59.661 41.667 0.00 0.00 46.14 1.28
283 284 5.530915 CCGAAGGCATCTTTTGGTCATATTA 59.469 40.000 0.00 0.00 46.14 0.98
284 285 6.207417 CCGAAGGCATCTTTTGGTCATATTAT 59.793 38.462 0.00 0.00 46.14 1.28
285 286 7.390440 CCGAAGGCATCTTTTGGTCATATTATA 59.610 37.037 0.00 0.00 46.14 0.98
286 287 8.950210 CGAAGGCATCTTTTGGTCATATTATAT 58.050 33.333 0.00 0.00 32.52 0.86
323 324 8.727100 ATTAGAGTAAGATGACATGTATCCCA 57.273 34.615 0.00 0.00 0.00 4.37
324 325 8.547481 TTAGAGTAAGATGACATGTATCCCAA 57.453 34.615 0.00 0.00 0.00 4.12
325 326 7.437713 AGAGTAAGATGACATGTATCCCAAA 57.562 36.000 0.00 0.00 0.00 3.28
326 327 8.038862 AGAGTAAGATGACATGTATCCCAAAT 57.961 34.615 0.00 0.00 0.00 2.32
327 328 8.497745 AGAGTAAGATGACATGTATCCCAAATT 58.502 33.333 0.00 0.00 0.00 1.82
328 329 9.125026 GAGTAAGATGACATGTATCCCAAATTT 57.875 33.333 0.00 0.00 0.00 1.82
332 333 9.645128 AAGATGACATGTATCCCAAATTTATGA 57.355 29.630 0.00 0.00 0.00 2.15
333 334 9.645128 AGATGACATGTATCCCAAATTTATGAA 57.355 29.630 0.00 0.00 0.00 2.57
385 386 9.753674 TCACAAGATAAGATTCTTTTTATGGGT 57.246 29.630 3.86 0.00 33.69 4.51
403 404 9.810545 TTTATGGGTAAACAACTTCTTTTTCTG 57.189 29.630 0.00 0.00 0.00 3.02
404 405 7.654022 ATGGGTAAACAACTTCTTTTTCTGA 57.346 32.000 0.00 0.00 0.00 3.27
405 406 7.469537 TGGGTAAACAACTTCTTTTTCTGAA 57.530 32.000 0.00 0.00 0.00 3.02
406 407 7.897864 TGGGTAAACAACTTCTTTTTCTGAAA 58.102 30.769 0.00 0.00 0.00 2.69
407 408 7.815549 TGGGTAAACAACTTCTTTTTCTGAAAC 59.184 33.333 1.58 0.00 0.00 2.78
408 409 7.815549 GGGTAAACAACTTCTTTTTCTGAAACA 59.184 33.333 1.58 0.00 0.00 2.83
409 410 8.644619 GGTAAACAACTTCTTTTTCTGAAACAC 58.355 33.333 1.58 0.00 0.00 3.32
410 411 6.927933 AACAACTTCTTTTTCTGAAACACG 57.072 33.333 1.58 0.00 0.00 4.49
411 412 6.009115 ACAACTTCTTTTTCTGAAACACGT 57.991 33.333 1.58 0.00 0.00 4.49
412 413 6.443792 ACAACTTCTTTTTCTGAAACACGTT 58.556 32.000 1.58 0.51 0.00 3.99
413 414 6.362283 ACAACTTCTTTTTCTGAAACACGTTG 59.638 34.615 18.18 18.18 34.65 4.10
414 415 4.857037 ACTTCTTTTTCTGAAACACGTTGC 59.143 37.500 1.58 0.00 0.00 4.17
415 416 4.427096 TCTTTTTCTGAAACACGTTGCA 57.573 36.364 1.58 0.00 0.00 4.08
416 417 4.411327 TCTTTTTCTGAAACACGTTGCAG 58.589 39.130 11.14 11.14 45.56 4.41
417 418 2.842208 TTTCTGAAACACGTTGCAGG 57.158 45.000 16.25 0.70 44.56 4.85
418 419 0.380378 TTCTGAAACACGTTGCAGGC 59.620 50.000 16.25 0.00 44.56 4.85
419 420 0.746204 TCTGAAACACGTTGCAGGCA 60.746 50.000 16.25 0.00 44.56 4.75
420 421 0.592247 CTGAAACACGTTGCAGGCAC 60.592 55.000 9.71 0.00 41.51 5.01
421 422 1.308783 TGAAACACGTTGCAGGCACA 61.309 50.000 0.00 0.00 0.00 4.57
422 423 0.865639 GAAACACGTTGCAGGCACAC 60.866 55.000 0.00 0.00 0.00 3.82
423 424 2.278182 AAACACGTTGCAGGCACACC 62.278 55.000 0.00 0.00 0.00 4.16
424 425 3.964875 CACGTTGCAGGCACACCC 61.965 66.667 0.00 0.00 36.11 4.61
427 428 2.672996 GTTGCAGGCACACCCGAT 60.673 61.111 0.00 0.00 39.21 4.18
428 429 2.672651 TTGCAGGCACACCCGATG 60.673 61.111 0.00 0.00 39.21 3.84
429 430 3.189376 TTGCAGGCACACCCGATGA 62.189 57.895 0.00 0.00 39.21 2.92
430 431 2.821366 GCAGGCACACCCGATGAG 60.821 66.667 0.00 0.00 39.21 2.90
431 432 2.821366 CAGGCACACCCGATGAGC 60.821 66.667 1.41 1.41 43.58 4.26
432 433 4.457496 AGGCACACCCGATGAGCG 62.457 66.667 3.72 0.00 45.11 5.03
435 436 3.490759 CACACCCGATGAGCGCAC 61.491 66.667 11.47 3.13 39.11 5.34
436 437 4.002506 ACACCCGATGAGCGCACA 62.003 61.111 10.65 10.65 39.11 4.57
437 438 2.512286 CACCCGATGAGCGCACAT 60.512 61.111 20.54 20.54 39.11 3.21
438 439 2.512286 ACCCGATGAGCGCACATG 60.512 61.111 25.16 15.76 39.11 3.21
439 440 2.512286 CCCGATGAGCGCACATGT 60.512 61.111 25.16 2.31 39.11 3.21
440 441 2.528743 CCCGATGAGCGCACATGTC 61.529 63.158 25.16 11.50 39.11 3.06
441 442 2.528743 CCGATGAGCGCACATGTCC 61.529 63.158 25.16 9.78 39.11 4.02
442 443 1.520120 CGATGAGCGCACATGTCCT 60.520 57.895 25.16 0.59 0.00 3.85
443 444 1.086067 CGATGAGCGCACATGTCCTT 61.086 55.000 25.16 0.00 0.00 3.36
444 445 1.089920 GATGAGCGCACATGTCCTTT 58.910 50.000 25.16 0.00 0.00 3.11
445 446 0.806868 ATGAGCGCACATGTCCTTTG 59.193 50.000 19.78 0.00 0.00 2.77
446 447 0.250252 TGAGCGCACATGTCCTTTGA 60.250 50.000 11.47 0.00 0.00 2.69
447 448 1.089920 GAGCGCACATGTCCTTTGAT 58.910 50.000 11.47 0.00 0.00 2.57
448 449 2.279741 GAGCGCACATGTCCTTTGATA 58.720 47.619 11.47 0.00 0.00 2.15
449 450 2.283298 AGCGCACATGTCCTTTGATAG 58.717 47.619 11.47 0.00 0.00 2.08
450 451 1.331756 GCGCACATGTCCTTTGATAGG 59.668 52.381 0.30 0.00 46.27 2.57
451 452 1.942657 CGCACATGTCCTTTGATAGGG 59.057 52.381 0.00 0.00 44.86 3.53
460 461 4.706842 TCCTTTGATAGGGCATTACCTC 57.293 45.455 0.00 0.00 44.86 3.85
461 462 4.307259 TCCTTTGATAGGGCATTACCTCT 58.693 43.478 0.00 0.00 44.86 3.69
462 463 5.473273 TCCTTTGATAGGGCATTACCTCTA 58.527 41.667 0.00 0.00 44.86 2.43
463 464 5.307196 TCCTTTGATAGGGCATTACCTCTAC 59.693 44.000 0.00 0.00 44.86 2.59
464 465 5.071788 CCTTTGATAGGGCATTACCTCTACA 59.928 44.000 0.00 0.00 42.09 2.74
465 466 6.409234 CCTTTGATAGGGCATTACCTCTACAA 60.409 42.308 0.00 0.00 42.09 2.41
466 467 5.546621 TGATAGGGCATTACCTCTACAAC 57.453 43.478 0.00 0.00 42.09 3.32
467 468 4.966168 TGATAGGGCATTACCTCTACAACA 59.034 41.667 0.00 0.00 42.09 3.33
468 469 5.606749 TGATAGGGCATTACCTCTACAACAT 59.393 40.000 0.00 0.00 42.09 2.71
469 470 4.423625 AGGGCATTACCTCTACAACATC 57.576 45.455 0.00 0.00 35.43 3.06
470 471 4.040755 AGGGCATTACCTCTACAACATCT 58.959 43.478 0.00 0.00 35.43 2.90
471 472 5.216622 AGGGCATTACCTCTACAACATCTA 58.783 41.667 0.00 0.00 35.43 1.98
472 473 5.846714 AGGGCATTACCTCTACAACATCTAT 59.153 40.000 0.00 0.00 35.43 1.98
473 474 7.016914 AGGGCATTACCTCTACAACATCTATA 58.983 38.462 0.00 0.00 35.43 1.31
474 475 7.680310 AGGGCATTACCTCTACAACATCTATAT 59.320 37.037 0.00 0.00 35.43 0.86
475 476 8.978472 GGGCATTACCTCTACAACATCTATATA 58.022 37.037 0.00 0.00 39.10 0.86
481 482 8.343168 ACCTCTACAACATCTATATAGTCTGC 57.657 38.462 9.58 0.00 0.00 4.26
482 483 8.167392 ACCTCTACAACATCTATATAGTCTGCT 58.833 37.037 9.58 0.00 0.00 4.24
483 484 9.019656 CCTCTACAACATCTATATAGTCTGCTT 57.980 37.037 9.58 4.30 0.00 3.91
488 489 9.765795 ACAACATCTATATAGTCTGCTTTAACC 57.234 33.333 9.58 0.00 0.00 2.85
489 490 9.764363 CAACATCTATATAGTCTGCTTTAACCA 57.236 33.333 9.58 0.00 0.00 3.67
491 492 9.935241 ACATCTATATAGTCTGCTTTAACCATG 57.065 33.333 9.58 4.18 0.00 3.66
492 493 9.935241 CATCTATATAGTCTGCTTTAACCATGT 57.065 33.333 9.58 0.00 0.00 3.21
514 515 2.178912 TTTTCCATCCGACTGACACC 57.821 50.000 0.00 0.00 0.00 4.16
515 516 1.052617 TTTCCATCCGACTGACACCA 58.947 50.000 0.00 0.00 0.00 4.17
516 517 1.052617 TTCCATCCGACTGACACCAA 58.947 50.000 0.00 0.00 0.00 3.67
517 518 0.320374 TCCATCCGACTGACACCAAC 59.680 55.000 0.00 0.00 0.00 3.77
518 519 0.673644 CCATCCGACTGACACCAACC 60.674 60.000 0.00 0.00 0.00 3.77
519 520 0.673644 CATCCGACTGACACCAACCC 60.674 60.000 0.00 0.00 0.00 4.11
520 521 2.167398 ATCCGACTGACACCAACCCG 62.167 60.000 0.00 0.00 0.00 5.28
521 522 2.732016 CGACTGACACCAACCCGA 59.268 61.111 0.00 0.00 0.00 5.14
522 523 1.372997 CGACTGACACCAACCCGAG 60.373 63.158 0.00 0.00 0.00 4.63
523 524 1.004918 GACTGACACCAACCCGAGG 60.005 63.158 0.00 0.00 0.00 4.63
524 525 1.458777 ACTGACACCAACCCGAGGA 60.459 57.895 0.00 0.00 0.00 3.71
525 526 1.052124 ACTGACACCAACCCGAGGAA 61.052 55.000 0.00 0.00 0.00 3.36
526 527 0.324943 CTGACACCAACCCGAGGAAT 59.675 55.000 0.00 0.00 0.00 3.01
527 528 0.768622 TGACACCAACCCGAGGAATT 59.231 50.000 0.00 0.00 0.00 2.17
528 529 1.165270 GACACCAACCCGAGGAATTG 58.835 55.000 0.00 0.00 0.00 2.32
529 530 0.476771 ACACCAACCCGAGGAATTGT 59.523 50.000 0.00 0.00 0.00 2.71
530 531 1.133606 ACACCAACCCGAGGAATTGTT 60.134 47.619 0.00 0.00 0.00 2.83
531 532 1.539827 CACCAACCCGAGGAATTGTTC 59.460 52.381 0.00 0.00 0.00 3.18
532 533 1.144093 ACCAACCCGAGGAATTGTTCA 59.856 47.619 0.00 0.00 0.00 3.18
533 534 1.812571 CCAACCCGAGGAATTGTTCAG 59.187 52.381 0.00 0.00 0.00 3.02
534 535 2.504367 CAACCCGAGGAATTGTTCAGT 58.496 47.619 0.00 0.00 0.00 3.41
535 536 3.558321 CCAACCCGAGGAATTGTTCAGTA 60.558 47.826 0.00 0.00 0.00 2.74
536 537 3.329929 ACCCGAGGAATTGTTCAGTAC 57.670 47.619 0.00 0.00 0.00 2.73
537 538 2.027469 ACCCGAGGAATTGTTCAGTACC 60.027 50.000 0.00 0.00 0.00 3.34
538 539 2.236395 CCCGAGGAATTGTTCAGTACCT 59.764 50.000 0.00 0.00 0.00 3.08
539 540 3.522553 CCGAGGAATTGTTCAGTACCTC 58.477 50.000 0.00 0.00 40.03 3.85
540 541 3.056107 CCGAGGAATTGTTCAGTACCTCA 60.056 47.826 0.00 0.00 42.49 3.86
541 542 4.562757 CCGAGGAATTGTTCAGTACCTCAA 60.563 45.833 0.00 0.00 42.49 3.02
542 543 4.389077 CGAGGAATTGTTCAGTACCTCAAC 59.611 45.833 0.00 0.00 42.49 3.18
543 544 5.304686 AGGAATTGTTCAGTACCTCAACA 57.695 39.130 0.00 0.00 0.00 3.33
544 545 5.690865 AGGAATTGTTCAGTACCTCAACAA 58.309 37.500 13.89 13.89 42.60 2.83
545 546 5.531287 AGGAATTGTTCAGTACCTCAACAAC 59.469 40.000 13.83 5.77 41.55 3.32
546 547 5.298276 GGAATTGTTCAGTACCTCAACAACA 59.702 40.000 13.83 2.17 41.55 3.33
547 548 5.751243 ATTGTTCAGTACCTCAACAACAC 57.249 39.130 13.83 0.00 41.55 3.32
548 549 3.537580 TGTTCAGTACCTCAACAACACC 58.462 45.455 0.00 0.00 0.00 4.16
549 550 3.055021 TGTTCAGTACCTCAACAACACCA 60.055 43.478 0.00 0.00 0.00 4.17
550 551 3.916359 TCAGTACCTCAACAACACCAA 57.084 42.857 0.00 0.00 0.00 3.67
551 552 4.431416 TCAGTACCTCAACAACACCAAT 57.569 40.909 0.00 0.00 0.00 3.16
552 553 4.133820 TCAGTACCTCAACAACACCAATG 58.866 43.478 0.00 0.00 0.00 2.82
553 554 3.882888 CAGTACCTCAACAACACCAATGT 59.117 43.478 0.00 0.00 42.46 2.71
554 555 5.060506 CAGTACCTCAACAACACCAATGTA 58.939 41.667 0.00 0.00 38.45 2.29
555 556 5.049680 CAGTACCTCAACAACACCAATGTAC 60.050 44.000 0.00 0.00 38.45 2.90
556 557 4.164843 ACCTCAACAACACCAATGTACT 57.835 40.909 0.00 0.00 38.45 2.73
557 558 4.134563 ACCTCAACAACACCAATGTACTC 58.865 43.478 0.00 0.00 38.45 2.59
558 559 3.502211 CCTCAACAACACCAATGTACTCC 59.498 47.826 0.00 0.00 38.45 3.85
559 560 3.482436 TCAACAACACCAATGTACTCCC 58.518 45.455 0.00 0.00 38.45 4.30
560 561 2.556622 CAACAACACCAATGTACTCCCC 59.443 50.000 0.00 0.00 38.45 4.81
561 562 1.074889 ACAACACCAATGTACTCCCCC 59.925 52.381 0.00 0.00 38.45 5.40
562 563 0.326927 AACACCAATGTACTCCCCCG 59.673 55.000 0.00 0.00 38.45 5.73
563 564 1.451387 CACCAATGTACTCCCCCGC 60.451 63.158 0.00 0.00 0.00 6.13
564 565 1.921346 ACCAATGTACTCCCCCGCA 60.921 57.895 0.00 0.00 0.00 5.69
565 566 1.301623 CCAATGTACTCCCCCGCAA 59.698 57.895 0.00 0.00 0.00 4.85
566 567 0.322997 CCAATGTACTCCCCCGCAAA 60.323 55.000 0.00 0.00 0.00 3.68
567 568 1.540267 CAATGTACTCCCCCGCAAAA 58.460 50.000 0.00 0.00 0.00 2.44
568 569 1.889829 CAATGTACTCCCCCGCAAAAA 59.110 47.619 0.00 0.00 0.00 1.94
634 635 1.005630 CGCTCCCGGAATCTCCATC 60.006 63.158 0.73 0.00 35.91 3.51
1253 1265 2.970324 GCGGGCGGATGCGATTTA 60.970 61.111 12.10 0.00 44.10 1.40
2540 2847 0.834612 CCCTCACGGTTATTGGGCTA 59.165 55.000 0.00 0.00 0.00 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 9.520515 AGGATAAGACAAAATGTTATGTTGACT 57.479 29.630 0.00 0.00 27.09 3.41
46 47 2.865079 TGTTATGTCCCCGCAGAAAAA 58.135 42.857 0.00 0.00 0.00 1.94
51 52 1.750193 AACATGTTATGTCCCCGCAG 58.250 50.000 9.97 0.00 44.07 5.18
89 90 8.567948 TCGCAAAAGAAATGATAATCTTATCCC 58.432 33.333 7.33 0.00 38.98 3.85
94 95 9.956720 CCTTATCGCAAAAGAAATGATAATCTT 57.043 29.630 0.00 0.00 37.49 2.40
95 96 9.342308 TCCTTATCGCAAAAGAAATGATAATCT 57.658 29.630 0.00 0.00 32.76 2.40
100 101 9.342308 TCTTATCCTTATCGCAAAAGAAATGAT 57.658 29.630 0.00 0.00 0.00 2.45
101 102 8.731275 TCTTATCCTTATCGCAAAAGAAATGA 57.269 30.769 0.00 0.00 0.00 2.57
102 103 9.956720 AATCTTATCCTTATCGCAAAAGAAATG 57.043 29.630 0.00 0.00 0.00 2.32
106 107 9.996554 TGATAATCTTATCCTTATCGCAAAAGA 57.003 29.630 7.33 0.00 38.98 2.52
131 132 8.915057 ATCAACATATGGAGGAAGTTCTAATG 57.085 34.615 7.80 1.53 0.00 1.90
142 143 8.777865 ATGTTATTACGATCAACATATGGAGG 57.222 34.615 7.80 0.00 40.24 4.30
170 171 4.039245 ACTCCATCCGTGTCCTACAATATG 59.961 45.833 0.00 0.00 0.00 1.78
176 177 3.022406 AGTTACTCCATCCGTGTCCTAC 58.978 50.000 0.00 0.00 0.00 3.18
184 185 3.408634 ACCACAAAAGTTACTCCATCCG 58.591 45.455 0.00 0.00 0.00 4.18
199 200 7.054124 AGACACTTAGAGAATTTTGACCACAA 58.946 34.615 0.00 0.00 0.00 3.33
200 201 6.591935 AGACACTTAGAGAATTTTGACCACA 58.408 36.000 0.00 0.00 0.00 4.17
201 202 8.660373 CATAGACACTTAGAGAATTTTGACCAC 58.340 37.037 0.00 0.00 0.00 4.16
202 203 7.334421 GCATAGACACTTAGAGAATTTTGACCA 59.666 37.037 0.00 0.00 0.00 4.02
203 204 7.334421 TGCATAGACACTTAGAGAATTTTGACC 59.666 37.037 0.00 0.00 0.00 4.02
204 205 8.256611 TGCATAGACACTTAGAGAATTTTGAC 57.743 34.615 0.00 0.00 0.00 3.18
205 206 8.721478 GTTGCATAGACACTTAGAGAATTTTGA 58.279 33.333 0.00 0.00 0.00 2.69
206 207 8.506437 TGTTGCATAGACACTTAGAGAATTTTG 58.494 33.333 0.00 0.00 0.00 2.44
207 208 8.621532 TGTTGCATAGACACTTAGAGAATTTT 57.378 30.769 0.00 0.00 0.00 1.82
208 209 8.671921 CATGTTGCATAGACACTTAGAGAATTT 58.328 33.333 0.00 0.00 0.00 1.82
209 210 7.281774 CCATGTTGCATAGACACTTAGAGAATT 59.718 37.037 0.00 0.00 0.00 2.17
210 211 6.765036 CCATGTTGCATAGACACTTAGAGAAT 59.235 38.462 0.00 0.00 0.00 2.40
211 212 6.108687 CCATGTTGCATAGACACTTAGAGAA 58.891 40.000 0.00 0.00 0.00 2.87
212 213 5.664457 CCATGTTGCATAGACACTTAGAGA 58.336 41.667 0.00 0.00 0.00 3.10
213 214 4.272018 GCCATGTTGCATAGACACTTAGAG 59.728 45.833 0.00 0.00 0.00 2.43
214 215 4.191544 GCCATGTTGCATAGACACTTAGA 58.808 43.478 0.00 0.00 0.00 2.10
215 216 3.940852 TGCCATGTTGCATAGACACTTAG 59.059 43.478 0.00 0.00 36.04 2.18
216 217 3.689161 GTGCCATGTTGCATAGACACTTA 59.311 43.478 0.00 0.00 44.30 2.24
217 218 2.489329 GTGCCATGTTGCATAGACACTT 59.511 45.455 0.00 0.00 44.30 3.16
218 219 2.086869 GTGCCATGTTGCATAGACACT 58.913 47.619 0.00 0.00 44.30 3.55
219 220 1.202065 CGTGCCATGTTGCATAGACAC 60.202 52.381 0.00 0.00 44.30 3.67
220 221 1.085893 CGTGCCATGTTGCATAGACA 58.914 50.000 0.00 0.00 44.30 3.41
221 222 1.368641 TCGTGCCATGTTGCATAGAC 58.631 50.000 0.00 0.00 44.30 2.59
222 223 1.941975 CATCGTGCCATGTTGCATAGA 59.058 47.619 0.00 4.26 44.30 1.98
223 224 1.941975 TCATCGTGCCATGTTGCATAG 59.058 47.619 0.00 0.00 44.30 2.23
224 225 1.941975 CTCATCGTGCCATGTTGCATA 59.058 47.619 0.00 0.00 44.30 3.14
225 226 0.736636 CTCATCGTGCCATGTTGCAT 59.263 50.000 0.00 0.00 44.30 3.96
226 227 1.307355 CCTCATCGTGCCATGTTGCA 61.307 55.000 0.00 0.00 39.37 4.08
227 228 1.430632 CCTCATCGTGCCATGTTGC 59.569 57.895 0.00 0.00 0.00 4.17
228 229 1.430632 GCCTCATCGTGCCATGTTG 59.569 57.895 0.00 0.00 0.00 3.33
229 230 2.108514 CGCCTCATCGTGCCATGTT 61.109 57.895 0.00 0.00 0.00 2.71
230 231 2.512286 CGCCTCATCGTGCCATGT 60.512 61.111 0.00 0.00 0.00 3.21
231 232 2.512286 ACGCCTCATCGTGCCATG 60.512 61.111 0.00 0.00 41.62 3.66
232 233 2.202932 GACGCCTCATCGTGCCAT 60.203 61.111 0.00 0.00 43.42 4.40
233 234 4.451150 GGACGCCTCATCGTGCCA 62.451 66.667 0.00 0.00 43.49 4.92
236 237 1.413767 CGAAAGGACGCCTCATCGTG 61.414 60.000 17.67 0.00 43.42 4.35
237 238 1.153823 CGAAAGGACGCCTCATCGT 60.154 57.895 17.67 0.00 46.38 3.73
238 239 0.099968 TACGAAAGGACGCCTCATCG 59.900 55.000 21.18 21.18 43.63 3.84
239 240 2.395654 GATACGAAAGGACGCCTCATC 58.604 52.381 0.00 1.44 36.70 2.92
240 241 1.068741 GGATACGAAAGGACGCCTCAT 59.931 52.381 0.00 0.00 36.70 2.90
241 242 0.458669 GGATACGAAAGGACGCCTCA 59.541 55.000 0.00 0.00 36.70 3.86
242 243 3.269520 GGATACGAAAGGACGCCTC 57.730 57.895 0.00 0.00 36.70 4.70
255 256 3.279434 ACCAAAAGATGCCTTCGGATAC 58.721 45.455 0.00 0.00 32.26 2.24
256 257 3.054728 TGACCAAAAGATGCCTTCGGATA 60.055 43.478 0.00 0.00 32.26 2.59
257 258 2.290896 TGACCAAAAGATGCCTTCGGAT 60.291 45.455 0.00 0.00 32.26 4.18
258 259 1.073125 TGACCAAAAGATGCCTTCGGA 59.927 47.619 0.00 0.00 32.26 4.55
259 260 1.533625 TGACCAAAAGATGCCTTCGG 58.466 50.000 0.00 0.00 33.42 4.30
260 261 5.505173 AATATGACCAAAAGATGCCTTCG 57.495 39.130 0.00 0.00 0.00 3.79
297 298 9.159254 TGGGATACATGTCATCTTACTCTAATT 57.841 33.333 0.00 0.00 39.74 1.40
298 299 8.727100 TGGGATACATGTCATCTTACTCTAAT 57.273 34.615 0.00 0.00 39.74 1.73
299 300 8.547481 TTGGGATACATGTCATCTTACTCTAA 57.453 34.615 0.00 0.00 39.74 2.10
300 301 8.547481 TTTGGGATACATGTCATCTTACTCTA 57.453 34.615 0.00 0.00 39.74 2.43
301 302 7.437713 TTTGGGATACATGTCATCTTACTCT 57.562 36.000 0.00 0.00 39.74 3.24
302 303 8.682936 AATTTGGGATACATGTCATCTTACTC 57.317 34.615 0.00 0.00 39.74 2.59
306 307 9.645128 TCATAAATTTGGGATACATGTCATCTT 57.355 29.630 0.00 0.00 39.74 2.40
307 308 9.645128 TTCATAAATTTGGGATACATGTCATCT 57.355 29.630 0.00 0.00 39.74 2.90
359 360 9.753674 ACCCATAAAAAGAATCTTATCTTGTGA 57.246 29.630 0.00 0.00 39.54 3.58
377 378 9.810545 CAGAAAAAGAAGTTGTTTACCCATAAA 57.189 29.630 0.00 0.00 0.00 1.40
378 379 9.191479 TCAGAAAAAGAAGTTGTTTACCCATAA 57.809 29.630 0.00 0.00 0.00 1.90
379 380 8.754991 TCAGAAAAAGAAGTTGTTTACCCATA 57.245 30.769 0.00 0.00 0.00 2.74
380 381 7.654022 TCAGAAAAAGAAGTTGTTTACCCAT 57.346 32.000 0.00 0.00 0.00 4.00
381 382 7.469537 TTCAGAAAAAGAAGTTGTTTACCCA 57.530 32.000 0.00 0.00 0.00 4.51
382 383 7.815549 TGTTTCAGAAAAAGAAGTTGTTTACCC 59.184 33.333 0.00 0.00 0.00 3.69
383 384 8.644619 GTGTTTCAGAAAAAGAAGTTGTTTACC 58.355 33.333 0.00 0.00 0.00 2.85
384 385 8.363029 CGTGTTTCAGAAAAAGAAGTTGTTTAC 58.637 33.333 0.00 0.00 0.00 2.01
385 386 8.077386 ACGTGTTTCAGAAAAAGAAGTTGTTTA 58.923 29.630 0.00 0.00 0.00 2.01
386 387 6.921307 ACGTGTTTCAGAAAAAGAAGTTGTTT 59.079 30.769 0.00 0.00 0.00 2.83
387 388 6.443792 ACGTGTTTCAGAAAAAGAAGTTGTT 58.556 32.000 0.00 0.00 0.00 2.83
388 389 6.009115 ACGTGTTTCAGAAAAAGAAGTTGT 57.991 33.333 0.00 0.00 0.00 3.32
389 390 6.667386 GCAACGTGTTTCAGAAAAAGAAGTTG 60.667 38.462 16.34 16.34 34.79 3.16
390 391 5.344933 GCAACGTGTTTCAGAAAAAGAAGTT 59.655 36.000 0.00 0.00 0.00 2.66
391 392 4.857037 GCAACGTGTTTCAGAAAAAGAAGT 59.143 37.500 0.00 0.00 0.00 3.01
392 393 4.856487 TGCAACGTGTTTCAGAAAAAGAAG 59.144 37.500 0.00 0.00 0.00 2.85
393 394 4.799678 TGCAACGTGTTTCAGAAAAAGAA 58.200 34.783 0.00 0.00 0.00 2.52
394 395 4.411327 CTGCAACGTGTTTCAGAAAAAGA 58.589 39.130 6.55 0.00 0.00 2.52
395 396 3.547468 CCTGCAACGTGTTTCAGAAAAAG 59.453 43.478 12.89 0.00 0.00 2.27
396 397 3.506810 CCTGCAACGTGTTTCAGAAAAA 58.493 40.909 12.89 0.00 0.00 1.94
397 398 2.733858 GCCTGCAACGTGTTTCAGAAAA 60.734 45.455 12.89 0.00 0.00 2.29
398 399 1.202245 GCCTGCAACGTGTTTCAGAAA 60.202 47.619 12.89 0.00 0.00 2.52
399 400 0.380378 GCCTGCAACGTGTTTCAGAA 59.620 50.000 12.89 0.00 0.00 3.02
400 401 0.746204 TGCCTGCAACGTGTTTCAGA 60.746 50.000 12.89 0.00 0.00 3.27
401 402 0.592247 GTGCCTGCAACGTGTTTCAG 60.592 55.000 5.55 5.55 0.00 3.02
402 403 1.308783 TGTGCCTGCAACGTGTTTCA 61.309 50.000 0.00 0.00 0.00 2.69
403 404 0.865639 GTGTGCCTGCAACGTGTTTC 60.866 55.000 0.00 0.00 0.00 2.78
404 405 1.138671 GTGTGCCTGCAACGTGTTT 59.861 52.632 0.00 0.00 0.00 2.83
405 406 2.770589 GGTGTGCCTGCAACGTGTT 61.771 57.895 0.00 0.00 0.00 3.32
406 407 3.209097 GGTGTGCCTGCAACGTGT 61.209 61.111 0.00 0.00 0.00 4.49
407 408 3.964875 GGGTGTGCCTGCAACGTG 61.965 66.667 0.00 0.00 34.45 4.49
410 411 2.672996 ATCGGGTGTGCCTGCAAC 60.673 61.111 0.00 0.00 40.99 4.17
411 412 2.672651 CATCGGGTGTGCCTGCAA 60.673 61.111 0.00 0.00 40.99 4.08
412 413 3.610619 CTCATCGGGTGTGCCTGCA 62.611 63.158 0.00 0.00 40.99 4.41
413 414 2.821366 CTCATCGGGTGTGCCTGC 60.821 66.667 0.00 0.00 40.99 4.85
414 415 2.821366 GCTCATCGGGTGTGCCTG 60.821 66.667 3.99 0.00 40.54 4.85
415 416 4.457496 CGCTCATCGGGTGTGCCT 62.457 66.667 9.49 0.00 42.79 4.75
418 419 3.490759 GTGCGCTCATCGGGTGTG 61.491 66.667 9.73 0.00 38.94 3.82
419 420 3.315142 ATGTGCGCTCATCGGGTGT 62.315 57.895 18.69 0.00 38.94 4.16
420 421 2.512286 ATGTGCGCTCATCGGGTG 60.512 61.111 18.69 0.00 38.94 4.61
421 422 2.512286 CATGTGCGCTCATCGGGT 60.512 61.111 21.29 0.00 38.94 5.28
422 423 2.512286 ACATGTGCGCTCATCGGG 60.512 61.111 21.29 13.29 38.94 5.14
423 424 2.528743 GGACATGTGCGCTCATCGG 61.529 63.158 21.29 13.96 38.94 4.18
424 425 1.086067 AAGGACATGTGCGCTCATCG 61.086 55.000 21.29 17.83 42.12 3.84
425 426 1.089920 AAAGGACATGTGCGCTCATC 58.910 50.000 21.29 12.60 0.00 2.92
426 427 0.806868 CAAAGGACATGTGCGCTCAT 59.193 50.000 18.69 18.69 0.00 2.90
427 428 0.250252 TCAAAGGACATGTGCGCTCA 60.250 50.000 15.29 15.29 0.00 4.26
428 429 1.089920 ATCAAAGGACATGTGCGCTC 58.910 50.000 12.02 5.51 0.00 5.03
429 430 2.283298 CTATCAAAGGACATGTGCGCT 58.717 47.619 12.02 0.18 0.00 5.92
430 431 2.744787 CTATCAAAGGACATGTGCGC 57.255 50.000 12.02 0.00 0.00 6.09
432 433 4.251443 ATGCCCTATCAAAGGACATGTGC 61.251 47.826 9.70 9.70 45.95 4.57
433 434 3.559069 ATGCCCTATCAAAGGACATGTG 58.441 45.455 1.15 0.00 45.95 3.21
434 435 3.959495 ATGCCCTATCAAAGGACATGT 57.041 42.857 0.00 0.00 45.95 3.21
435 436 4.520492 GGTAATGCCCTATCAAAGGACATG 59.480 45.833 0.00 0.00 46.92 3.21
440 441 4.713792 AGAGGTAATGCCCTATCAAAGG 57.286 45.455 0.00 0.00 46.09 3.11
441 442 6.174720 TGTAGAGGTAATGCCCTATCAAAG 57.825 41.667 0.00 0.00 38.26 2.77
442 443 6.069905 TGTTGTAGAGGTAATGCCCTATCAAA 60.070 38.462 0.00 0.00 38.26 2.69
443 444 5.427157 TGTTGTAGAGGTAATGCCCTATCAA 59.573 40.000 0.00 0.00 38.26 2.57
444 445 4.966168 TGTTGTAGAGGTAATGCCCTATCA 59.034 41.667 0.00 0.00 38.26 2.15
445 446 5.546621 TGTTGTAGAGGTAATGCCCTATC 57.453 43.478 0.00 0.00 38.26 2.08
446 447 5.846714 AGATGTTGTAGAGGTAATGCCCTAT 59.153 40.000 0.00 0.00 38.26 2.57
447 448 5.216622 AGATGTTGTAGAGGTAATGCCCTA 58.783 41.667 0.00 0.00 38.26 3.53
448 449 4.040755 AGATGTTGTAGAGGTAATGCCCT 58.959 43.478 0.00 0.00 38.26 5.19
449 450 4.423625 AGATGTTGTAGAGGTAATGCCC 57.576 45.455 0.00 0.00 38.26 5.36
455 456 9.451002 GCAGACTATATAGATGTTGTAGAGGTA 57.549 37.037 16.79 0.00 0.00 3.08
456 457 8.167392 AGCAGACTATATAGATGTTGTAGAGGT 58.833 37.037 16.79 0.00 0.00 3.85
457 458 8.574251 AGCAGACTATATAGATGTTGTAGAGG 57.426 38.462 16.79 0.00 0.00 3.69
462 463 9.765795 GGTTAAAGCAGACTATATAGATGTTGT 57.234 33.333 16.79 9.78 0.00 3.32
463 464 9.764363 TGGTTAAAGCAGACTATATAGATGTTG 57.236 33.333 16.79 9.26 0.00 3.33
465 466 9.935241 CATGGTTAAAGCAGACTATATAGATGT 57.065 33.333 16.79 0.00 0.00 3.06
466 467 9.935241 ACATGGTTAAAGCAGACTATATAGATG 57.065 33.333 16.79 14.25 0.00 2.90
494 495 2.158740 TGGTGTCAGTCGGATGGAAAAA 60.159 45.455 0.00 0.00 0.00 1.94
495 496 1.418264 TGGTGTCAGTCGGATGGAAAA 59.582 47.619 0.00 0.00 0.00 2.29
496 497 1.052617 TGGTGTCAGTCGGATGGAAA 58.947 50.000 0.00 0.00 0.00 3.13
497 498 1.052617 TTGGTGTCAGTCGGATGGAA 58.947 50.000 0.00 0.00 0.00 3.53
498 499 0.320374 GTTGGTGTCAGTCGGATGGA 59.680 55.000 0.00 0.00 0.00 3.41
499 500 0.673644 GGTTGGTGTCAGTCGGATGG 60.674 60.000 0.00 0.00 0.00 3.51
500 501 0.673644 GGGTTGGTGTCAGTCGGATG 60.674 60.000 0.00 0.00 0.00 3.51
501 502 1.677552 GGGTTGGTGTCAGTCGGAT 59.322 57.895 0.00 0.00 0.00 4.18
502 503 2.863346 CGGGTTGGTGTCAGTCGGA 61.863 63.158 0.00 0.00 0.00 4.55
503 504 2.357034 CGGGTTGGTGTCAGTCGG 60.357 66.667 0.00 0.00 0.00 4.79
504 505 1.372997 CTCGGGTTGGTGTCAGTCG 60.373 63.158 0.00 0.00 0.00 4.18
505 506 1.004918 CCTCGGGTTGGTGTCAGTC 60.005 63.158 0.00 0.00 0.00 3.51
506 507 1.052124 TTCCTCGGGTTGGTGTCAGT 61.052 55.000 0.00 0.00 0.00 3.41
507 508 0.324943 ATTCCTCGGGTTGGTGTCAG 59.675 55.000 0.00 0.00 0.00 3.51
508 509 0.768622 AATTCCTCGGGTTGGTGTCA 59.231 50.000 0.00 0.00 0.00 3.58
509 510 1.165270 CAATTCCTCGGGTTGGTGTC 58.835 55.000 0.00 0.00 0.00 3.67
510 511 0.476771 ACAATTCCTCGGGTTGGTGT 59.523 50.000 6.84 0.00 0.00 4.16
511 512 1.539827 GAACAATTCCTCGGGTTGGTG 59.460 52.381 0.00 0.00 0.00 4.17
512 513 1.144093 TGAACAATTCCTCGGGTTGGT 59.856 47.619 0.00 1.20 0.00 3.67
513 514 1.812571 CTGAACAATTCCTCGGGTTGG 59.187 52.381 0.00 0.00 0.00 3.77
514 515 2.504367 ACTGAACAATTCCTCGGGTTG 58.496 47.619 0.00 0.00 0.00 3.77
515 516 2.951229 ACTGAACAATTCCTCGGGTT 57.049 45.000 0.00 0.00 0.00 4.11
516 517 2.027469 GGTACTGAACAATTCCTCGGGT 60.027 50.000 0.00 0.00 0.00 5.28
517 518 2.236395 AGGTACTGAACAATTCCTCGGG 59.764 50.000 0.00 0.00 37.18 5.14
518 519 3.056107 TGAGGTACTGAACAATTCCTCGG 60.056 47.826 4.96 0.00 41.55 4.63
519 520 4.188247 TGAGGTACTGAACAATTCCTCG 57.812 45.455 4.96 0.00 41.55 4.63
528 529 8.592477 TACATTGGTGTTGTTGAGGTACTGAAC 61.592 40.741 0.00 0.00 44.85 3.18
529 530 3.916359 TGGTGTTGTTGAGGTACTGAA 57.084 42.857 0.00 0.00 41.55 3.02
530 531 3.916359 TTGGTGTTGTTGAGGTACTGA 57.084 42.857 0.00 0.00 41.55 3.41
531 532 3.882888 ACATTGGTGTTGTTGAGGTACTG 59.117 43.478 0.00 0.00 34.06 2.74
532 533 4.164843 ACATTGGTGTTGTTGAGGTACT 57.835 40.909 0.00 0.00 36.70 2.73
533 534 5.061179 AGTACATTGGTGTTGTTGAGGTAC 58.939 41.667 0.00 0.00 39.77 3.34
534 535 5.298989 AGTACATTGGTGTTGTTGAGGTA 57.701 39.130 0.00 0.00 39.77 3.08
535 536 4.134563 GAGTACATTGGTGTTGTTGAGGT 58.865 43.478 0.00 0.00 39.77 3.85
536 537 3.502211 GGAGTACATTGGTGTTGTTGAGG 59.498 47.826 0.00 0.00 39.77 3.86
537 538 3.502211 GGGAGTACATTGGTGTTGTTGAG 59.498 47.826 0.00 0.00 39.77 3.02
538 539 3.482436 GGGAGTACATTGGTGTTGTTGA 58.518 45.455 0.00 0.00 39.77 3.18
539 540 2.556622 GGGGAGTACATTGGTGTTGTTG 59.443 50.000 0.00 0.00 39.77 3.33
540 541 2.490168 GGGGGAGTACATTGGTGTTGTT 60.490 50.000 0.00 0.00 39.77 2.83
541 542 1.074889 GGGGGAGTACATTGGTGTTGT 59.925 52.381 0.00 0.00 39.77 3.32
542 543 1.834188 GGGGGAGTACATTGGTGTTG 58.166 55.000 0.00 0.00 39.77 3.33
543 544 0.326927 CGGGGGAGTACATTGGTGTT 59.673 55.000 0.00 0.00 39.77 3.32
544 545 1.988015 CGGGGGAGTACATTGGTGT 59.012 57.895 0.00 0.00 42.39 4.16
545 546 1.451387 GCGGGGGAGTACATTGGTG 60.451 63.158 0.00 0.00 0.00 4.17
546 547 1.493854 TTGCGGGGGAGTACATTGGT 61.494 55.000 0.00 0.00 0.00 3.67
547 548 0.322997 TTTGCGGGGGAGTACATTGG 60.323 55.000 0.00 0.00 0.00 3.16
548 549 1.540267 TTTTGCGGGGGAGTACATTG 58.460 50.000 0.00 0.00 0.00 2.82
549 550 2.296073 TTTTTGCGGGGGAGTACATT 57.704 45.000 0.00 0.00 0.00 2.71
565 566 9.585099 TTATCGGACTACATACGTGTTATTTTT 57.415 29.630 0.00 0.00 39.77 1.94
566 567 9.754382 ATTATCGGACTACATACGTGTTATTTT 57.246 29.630 0.00 0.00 39.77 1.82
567 568 9.754382 AATTATCGGACTACATACGTGTTATTT 57.246 29.630 0.00 0.00 39.77 1.40
568 569 9.188588 CAATTATCGGACTACATACGTGTTATT 57.811 33.333 0.00 0.00 39.77 1.40
569 570 7.327761 GCAATTATCGGACTACATACGTGTTAT 59.672 37.037 0.00 0.00 39.77 1.89
570 571 6.638063 GCAATTATCGGACTACATACGTGTTA 59.362 38.462 0.00 0.00 39.77 2.41
571 572 5.461078 GCAATTATCGGACTACATACGTGTT 59.539 40.000 0.00 0.00 39.77 3.32
572 573 4.980434 GCAATTATCGGACTACATACGTGT 59.020 41.667 0.00 0.00 42.39 4.49
573 574 5.220381 AGCAATTATCGGACTACATACGTG 58.780 41.667 0.00 0.00 0.00 4.49
574 575 5.449107 AGCAATTATCGGACTACATACGT 57.551 39.130 0.00 0.00 0.00 3.57
575 576 6.028368 CCTAGCAATTATCGGACTACATACG 58.972 44.000 0.00 0.00 0.00 3.06
576 577 5.805994 GCCTAGCAATTATCGGACTACATAC 59.194 44.000 0.00 0.00 0.00 2.39
577 578 5.392703 CGCCTAGCAATTATCGGACTACATA 60.393 44.000 0.00 0.00 0.00 2.29
578 579 4.618460 CGCCTAGCAATTATCGGACTACAT 60.618 45.833 0.00 0.00 0.00 2.29
579 580 3.305131 CGCCTAGCAATTATCGGACTACA 60.305 47.826 0.00 0.00 0.00 2.74
580 581 3.243336 CGCCTAGCAATTATCGGACTAC 58.757 50.000 0.00 0.00 0.00 2.73
581 582 3.570926 CGCCTAGCAATTATCGGACTA 57.429 47.619 0.00 0.00 0.00 2.59
582 583 2.440539 CGCCTAGCAATTATCGGACT 57.559 50.000 0.00 0.00 0.00 3.85
634 635 2.278857 CTCCAGCGGATCGAACGG 60.279 66.667 13.59 5.53 0.00 4.44
1253 1265 1.379044 GCCTTGCTGCCACCTGTAT 60.379 57.895 0.00 0.00 0.00 2.29
1654 1701 9.915629 CATAACACTAAGCCTAATCCTACTTAG 57.084 37.037 7.00 7.00 44.57 2.18
2540 2847 1.077501 CCAGCCCACATGAACGGAT 60.078 57.895 0.00 0.00 0.00 4.18
2592 2899 2.393557 GCGATTTCGATGCCAAGGA 58.606 52.632 3.77 0.00 43.02 3.36


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

AutoCloner maintained by Alex Coulton.