Multiple sequence alignment - TraesCS6D01G125100

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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 TraesCS6D01G125100 chr6D 100.000 3698 0 0 1 3698 89198806 89195109 0.000000e+00 6830.0
1 TraesCS6D01G125100 chr6D 91.304 368 23 6 80 439 89198540 89198174 9.230000e-136 494.0
2 TraesCS6D01G125100 chr6D 91.304 368 23 6 267 633 89198727 89198368 9.230000e-136 494.0
3 TraesCS6D01G125100 chr6D 94.444 126 6 1 127 251 89198299 89198174 3.770000e-45 193.0
4 TraesCS6D01G125100 chr6D 94.444 126 6 1 508 633 89198680 89198556 3.770000e-45 193.0
5 TraesCS6D01G125100 chr3D 95.472 2385 104 4 935 3317 424506581 424508963 0.000000e+00 3803.0
6 TraesCS6D01G125100 chr3D 93.366 618 31 7 316 925 424505772 424506387 0.000000e+00 905.0
7 TraesCS6D01G125100 chr3D 86.422 464 35 10 3 457 424505662 424506106 2.000000e-132 483.0
8 TraesCS6D01G125100 chr3D 94.656 131 5 2 510 639 424505772 424505901 6.260000e-48 202.0
9 TraesCS6D01G125100 chr3D 86.022 186 17 6 80 257 424505910 424506094 1.360000e-44 191.0
10 TraesCS6D01G125100 chr2D 90.958 2787 217 13 945 3698 584312245 584315029 0.000000e+00 3718.0
11 TraesCS6D01G125100 chr2D 88.813 2780 265 27 942 3698 569370949 569368193 0.000000e+00 3369.0
12 TraesCS6D01G125100 chr2D 85.484 496 42 10 455 925 584311559 584312049 1.190000e-134 490.0
13 TraesCS6D01G125100 chr2D 78.629 248 35 13 3 248 569372166 569371935 8.270000e-32 148.0
14 TraesCS6D01G125100 chr2B 90.224 2772 252 11 943 3698 703721215 703723983 0.000000e+00 3600.0
15 TraesCS6D01G125100 chr2A 90.260 2382 195 9 1325 3698 44040819 44043171 0.000000e+00 3079.0
16 TraesCS6D01G125100 chr2A 79.797 2267 410 38 1462 3698 446714786 446717034 0.000000e+00 1605.0
17 TraesCS6D01G125100 chr2A 83.579 542 77 7 939 1471 44040358 44040896 7.130000e-137 497.0
18 TraesCS6D01G125100 chr2A 81.200 500 56 16 455 925 44039766 44040256 5.830000e-98 368.0
19 TraesCS6D01G125100 chr3B 86.780 2776 337 19 947 3698 744180594 744177825 0.000000e+00 3066.0
20 TraesCS6D01G125100 chr3B 86.344 2314 287 22 1399 3698 685497096 685499394 0.000000e+00 2495.0
21 TraesCS6D01G125100 chr3B 84.332 217 25 4 485 693 744181514 744181299 1.740000e-48 204.0
22 TraesCS6D01G125100 chr4B 84.894 2787 352 41 942 3698 648818473 648815726 0.000000e+00 2750.0
23 TraesCS6D01G125100 chr4A 86.554 2484 300 18 1229 3698 581204518 581206981 0.000000e+00 2706.0
24 TraesCS6D01G125100 chr4A 85.413 2468 325 20 1240 3693 713095044 713092598 0.000000e+00 2531.0
25 TraesCS6D01G125100 chr4A 83.448 290 37 5 483 763 581203593 581203880 3.660000e-65 259.0
26 TraesCS6D01G125100 chr4A 84.314 153 22 2 477 628 581203039 581203190 8.270000e-32 148.0
27 TraesCS6D01G125100 chr5A 95.238 42 1 1 1035 1076 445279054 445279094 8.570000e-07 65.8


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 TraesCS6D01G125100 chr6D 89195109 89198806 3697 True 1640.800000 6830 94.2992 1 3698 5 chr6D.!!$R1 3697
1 TraesCS6D01G125100 chr3D 424505662 424508963 3301 False 1116.800000 3803 91.1876 3 3317 5 chr3D.!!$F1 3314
2 TraesCS6D01G125100 chr2D 584311559 584315029 3470 False 2104.000000 3718 88.2210 455 3698 2 chr2D.!!$F1 3243
3 TraesCS6D01G125100 chr2D 569368193 569372166 3973 True 1758.500000 3369 83.7210 3 3698 2 chr2D.!!$R1 3695
4 TraesCS6D01G125100 chr2B 703721215 703723983 2768 False 3600.000000 3600 90.2240 943 3698 1 chr2B.!!$F1 2755
5 TraesCS6D01G125100 chr2A 446714786 446717034 2248 False 1605.000000 1605 79.7970 1462 3698 1 chr2A.!!$F1 2236
6 TraesCS6D01G125100 chr2A 44039766 44043171 3405 False 1314.666667 3079 85.0130 455 3698 3 chr2A.!!$F2 3243
7 TraesCS6D01G125100 chr3B 685497096 685499394 2298 False 2495.000000 2495 86.3440 1399 3698 1 chr3B.!!$F1 2299
8 TraesCS6D01G125100 chr3B 744177825 744181514 3689 True 1635.000000 3066 85.5560 485 3698 2 chr3B.!!$R1 3213
9 TraesCS6D01G125100 chr4B 648815726 648818473 2747 True 2750.000000 2750 84.8940 942 3698 1 chr4B.!!$R1 2756
10 TraesCS6D01G125100 chr4A 713092598 713095044 2446 True 2531.000000 2531 85.4130 1240 3693 1 chr4A.!!$R1 2453
11 TraesCS6D01G125100 chr4A 581203039 581206981 3942 False 1037.666667 2706 84.7720 477 3698 3 chr4A.!!$F1 3221

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
937 2415 0.447801 GCATTACCGGTGCAGTCAAG 59.552 55.0 19.93 0.0 42.08 3.02 F
1689 3576 1.390565 AGCAGCAAATGATGAGAGCC 58.609 50.0 2.32 0.0 32.25 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2342 4264 4.816385 TCTGAGCTTGACAACCTGTTTTAG 59.184 41.667 0.00 0.00 0.0 1.85 R
3196 5133 0.550914 TGTTGTATCATCTGGGGCCC 59.449 55.000 18.17 18.17 0.0 5.80 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
23 24 1.425066 TCTGGAAGCACCTGTCCAAAT 59.575 47.619 0.00 0.00 43.32 2.32
69 70 8.133627 CCATAGATGATTTCCTGTAAGCAAAAG 58.866 37.037 0.00 0.00 0.00 2.27
113 114 7.719633 TGAAACAAAAACAGAGAGGCTAACTAT 59.280 33.333 0.00 0.00 0.00 2.12
114 115 8.465273 AAACAAAAACAGAGAGGCTAACTATT 57.535 30.769 0.00 0.00 0.00 1.73
115 116 7.674471 ACAAAAACAGAGAGGCTAACTATTC 57.326 36.000 0.00 0.00 0.00 1.75
116 117 7.454225 ACAAAAACAGAGAGGCTAACTATTCT 58.546 34.615 0.00 0.00 0.00 2.40
117 118 7.389053 ACAAAAACAGAGAGGCTAACTATTCTG 59.611 37.037 0.00 0.00 42.41 3.02
119 120 6.859112 AACAGAGAGGCTAACTATTCTGAA 57.141 37.500 12.46 0.00 40.67 3.02
120 121 6.859112 ACAGAGAGGCTAACTATTCTGAAA 57.141 37.500 12.46 0.00 40.67 2.69
121 122 6.635755 ACAGAGAGGCTAACTATTCTGAAAC 58.364 40.000 12.46 0.00 40.67 2.78
122 123 6.211584 ACAGAGAGGCTAACTATTCTGAAACA 59.788 38.462 12.46 0.00 40.67 2.83
123 124 7.099764 CAGAGAGGCTAACTATTCTGAAACAA 58.900 38.462 0.00 0.00 40.67 2.83
124 125 7.768120 CAGAGAGGCTAACTATTCTGAAACAAT 59.232 37.037 0.00 0.00 40.67 2.71
125 126 7.984617 AGAGAGGCTAACTATTCTGAAACAATC 59.015 37.037 0.00 0.00 0.00 2.67
200 201 7.337689 ACATTATTCTCAGCAGCAAGAATACAA 59.662 33.333 21.35 14.42 41.71 2.41
206 207 6.432162 TCTCAGCAGCAAGAATACAAAGATTT 59.568 34.615 0.00 0.00 0.00 2.17
207 208 6.384224 TCAGCAGCAAGAATACAAAGATTTG 58.616 36.000 3.79 3.79 43.62 2.32
238 239 9.793259 ATAGAAGTCATGAGAACAAGGTAAAAA 57.207 29.630 0.00 0.00 0.00 1.94
239 240 8.159344 AGAAGTCATGAGAACAAGGTAAAAAG 57.841 34.615 0.00 0.00 0.00 2.27
240 241 6.319141 AGTCATGAGAACAAGGTAAAAAGC 57.681 37.500 0.00 0.00 0.00 3.51
241 242 5.827797 AGTCATGAGAACAAGGTAAAAAGCA 59.172 36.000 0.00 0.00 0.00 3.91
242 243 6.491403 AGTCATGAGAACAAGGTAAAAAGCAT 59.509 34.615 0.00 0.00 0.00 3.79
243 244 7.665559 AGTCATGAGAACAAGGTAAAAAGCATA 59.334 33.333 0.00 0.00 0.00 3.14
244 245 8.296713 GTCATGAGAACAAGGTAAAAAGCATAA 58.703 33.333 0.00 0.00 0.00 1.90
245 246 8.855110 TCATGAGAACAAGGTAAAAAGCATAAA 58.145 29.630 0.00 0.00 0.00 1.40
246 247 9.474920 CATGAGAACAAGGTAAAAAGCATAAAA 57.525 29.630 0.00 0.00 0.00 1.52
252 253 9.845740 AACAAGGTAAAAAGCATAAAAATTCCT 57.154 25.926 0.00 0.00 0.00 3.36
289 290 8.697846 ATATGCATCATGAAACAAAAACAGAG 57.302 30.769 0.19 0.00 0.00 3.35
290 291 6.146601 TGCATCATGAAACAAAAACAGAGA 57.853 33.333 0.00 0.00 0.00 3.10
291 292 6.210796 TGCATCATGAAACAAAAACAGAGAG 58.789 36.000 0.00 0.00 0.00 3.20
292 293 5.632347 GCATCATGAAACAAAAACAGAGAGG 59.368 40.000 0.00 0.00 0.00 3.69
293 294 5.186996 TCATGAAACAAAAACAGAGAGGC 57.813 39.130 0.00 0.00 0.00 4.70
294 295 4.889409 TCATGAAACAAAAACAGAGAGGCT 59.111 37.500 0.00 0.00 0.00 4.58
295 296 6.061441 TCATGAAACAAAAACAGAGAGGCTA 58.939 36.000 0.00 0.00 0.00 3.93
296 297 6.545666 TCATGAAACAAAAACAGAGAGGCTAA 59.454 34.615 0.00 0.00 0.00 3.09
297 298 6.131544 TGAAACAAAAACAGAGAGGCTAAC 57.868 37.500 0.00 0.00 0.00 2.34
298 299 5.885912 TGAAACAAAAACAGAGAGGCTAACT 59.114 36.000 0.00 0.00 0.00 2.24
299 300 7.051623 TGAAACAAAAACAGAGAGGCTAACTA 58.948 34.615 0.00 0.00 0.00 2.24
300 301 7.719633 TGAAACAAAAACAGAGAGGCTAACTAT 59.280 33.333 0.00 0.00 0.00 2.12
301 302 8.465273 AAACAAAAACAGAGAGGCTAACTATT 57.535 30.769 0.00 0.00 0.00 1.73
302 303 7.674471 ACAAAAACAGAGAGGCTAACTATTC 57.326 36.000 0.00 0.00 0.00 1.75
303 304 7.454225 ACAAAAACAGAGAGGCTAACTATTCT 58.546 34.615 0.00 0.00 0.00 2.40
304 305 7.389053 ACAAAAACAGAGAGGCTAACTATTCTG 59.611 37.037 0.00 0.00 42.41 3.02
305 306 6.859112 AAACAGAGAGGCTAACTATTCTGA 57.141 37.500 12.46 0.00 40.67 3.27
306 307 6.859112 AACAGAGAGGCTAACTATTCTGAA 57.141 37.500 12.46 0.00 40.67 3.02
307 308 6.859112 ACAGAGAGGCTAACTATTCTGAAA 57.141 37.500 12.46 0.00 40.67 2.69
308 309 6.635755 ACAGAGAGGCTAACTATTCTGAAAC 58.364 40.000 12.46 0.00 40.67 2.78
309 310 6.211584 ACAGAGAGGCTAACTATTCTGAAACA 59.788 38.462 12.46 0.00 40.67 2.83
310 311 6.756074 CAGAGAGGCTAACTATTCTGAAACAG 59.244 42.308 0.00 0.00 40.67 3.16
311 312 6.439058 AGAGAGGCTAACTATTCTGAAACAGT 59.561 38.462 0.00 0.00 32.61 3.55
312 313 6.635755 AGAGGCTAACTATTCTGAAACAGTC 58.364 40.000 8.05 0.00 32.61 3.51
313 314 6.211584 AGAGGCTAACTATTCTGAAACAGTCA 59.788 38.462 8.05 0.00 32.61 3.41
326 327 6.757897 TGAAACAGTCAGTTCTGAAACATT 57.242 33.333 3.99 0.00 40.26 2.71
327 328 7.156876 TGAAACAGTCAGTTCTGAAACATTT 57.843 32.000 3.99 3.88 40.26 2.32
328 329 8.275015 TGAAACAGTCAGTTCTGAAACATTTA 57.725 30.769 3.99 0.00 40.26 1.40
329 330 8.397906 TGAAACAGTCAGTTCTGAAACATTTAG 58.602 33.333 3.99 0.00 40.26 1.85
330 331 7.865706 AACAGTCAGTTCTGAAACATTTAGT 57.134 32.000 3.99 0.00 34.74 2.24
331 332 7.865706 ACAGTCAGTTCTGAAACATTTAGTT 57.134 32.000 3.99 0.00 39.24 2.24
332 333 8.958119 ACAGTCAGTTCTGAAACATTTAGTTA 57.042 30.769 3.99 0.00 37.90 2.24
333 334 9.391006 ACAGTCAGTTCTGAAACATTTAGTTAA 57.609 29.630 3.99 0.00 37.90 2.01
347 348 9.643693 AACATTTAGTTAATTTGCATTCTCAGG 57.356 29.630 0.00 0.00 39.09 3.86
348 349 8.806146 ACATTTAGTTAATTTGCATTCTCAGGT 58.194 29.630 0.00 0.00 0.00 4.00
351 352 6.759497 AGTTAATTTGCATTCTCAGGTACC 57.241 37.500 2.73 2.73 0.00 3.34
352 353 6.485171 AGTTAATTTGCATTCTCAGGTACCT 58.515 36.000 9.21 9.21 0.00 3.08
353 354 7.630082 AGTTAATTTGCATTCTCAGGTACCTA 58.370 34.615 15.80 0.00 0.00 3.08
354 355 8.107095 AGTTAATTTGCATTCTCAGGTACCTAA 58.893 33.333 15.80 6.03 0.00 2.69
355 356 8.736244 GTTAATTTGCATTCTCAGGTACCTAAA 58.264 33.333 15.80 9.35 0.00 1.85
356 357 7.775053 AATTTGCATTCTCAGGTACCTAAAA 57.225 32.000 15.80 9.57 0.00 1.52
357 358 7.961326 ATTTGCATTCTCAGGTACCTAAAAT 57.039 32.000 15.80 11.48 0.00 1.82
358 359 7.775053 TTTGCATTCTCAGGTACCTAAAATT 57.225 32.000 15.80 0.00 0.00 1.82
359 360 6.757897 TGCATTCTCAGGTACCTAAAATTG 57.242 37.500 15.80 11.09 0.00 2.32
360 361 5.125417 TGCATTCTCAGGTACCTAAAATTGC 59.875 40.000 15.80 19.99 0.00 3.56
361 362 5.125417 GCATTCTCAGGTACCTAAAATTGCA 59.875 40.000 23.19 4.19 0.00 4.08
362 363 6.555315 CATTCTCAGGTACCTAAAATTGCAC 58.445 40.000 15.80 0.00 0.00 4.57
363 364 5.235850 TCTCAGGTACCTAAAATTGCACA 57.764 39.130 15.80 0.00 0.00 4.57
364 365 5.815581 TCTCAGGTACCTAAAATTGCACAT 58.184 37.500 15.80 0.00 0.00 3.21
365 366 6.245408 TCTCAGGTACCTAAAATTGCACATT 58.755 36.000 15.80 0.00 0.00 2.71
366 367 7.398829 TCTCAGGTACCTAAAATTGCACATTA 58.601 34.615 15.80 0.00 0.00 1.90
367 368 8.052748 TCTCAGGTACCTAAAATTGCACATTAT 58.947 33.333 15.80 0.00 0.00 1.28
368 369 9.337396 CTCAGGTACCTAAAATTGCACATTATA 57.663 33.333 15.80 0.00 0.00 0.98
369 370 9.116067 TCAGGTACCTAAAATTGCACATTATAC 57.884 33.333 15.80 0.00 0.00 1.47
370 371 9.120538 CAGGTACCTAAAATTGCACATTATACT 57.879 33.333 15.80 0.00 0.00 2.12
371 372 9.338622 AGGTACCTAAAATTGCACATTATACTC 57.661 33.333 14.41 0.00 0.00 2.59
372 373 9.116067 GGTACCTAAAATTGCACATTATACTCA 57.884 33.333 4.06 0.00 0.00 3.41
374 375 7.707104 ACCTAAAATTGCACATTATACTCAGC 58.293 34.615 0.00 0.00 0.00 4.26
375 376 7.339212 ACCTAAAATTGCACATTATACTCAGCA 59.661 33.333 0.00 0.00 0.00 4.41
376 377 7.859377 CCTAAAATTGCACATTATACTCAGCAG 59.141 37.037 0.00 0.00 33.14 4.24
377 378 4.825546 ATTGCACATTATACTCAGCAGC 57.174 40.909 0.00 0.00 33.14 5.25
378 379 3.264998 TGCACATTATACTCAGCAGCA 57.735 42.857 0.00 0.00 0.00 4.41
379 380 3.608796 TGCACATTATACTCAGCAGCAA 58.391 40.909 0.00 0.00 0.00 3.91
380 381 3.624410 TGCACATTATACTCAGCAGCAAG 59.376 43.478 0.00 0.00 0.00 4.01
381 382 3.873361 GCACATTATACTCAGCAGCAAGA 59.127 43.478 0.00 0.00 0.00 3.02
382 383 4.333649 GCACATTATACTCAGCAGCAAGAA 59.666 41.667 0.00 0.00 0.00 2.52
383 384 5.008415 GCACATTATACTCAGCAGCAAGAAT 59.992 40.000 0.00 0.00 0.00 2.40
384 385 6.203530 GCACATTATACTCAGCAGCAAGAATA 59.796 38.462 0.00 0.00 0.00 1.75
385 386 7.571026 CACATTATACTCAGCAGCAAGAATAC 58.429 38.462 0.00 0.00 0.00 1.89
386 387 7.225341 CACATTATACTCAGCAGCAAGAATACA 59.775 37.037 0.00 0.00 0.00 2.29
387 388 7.770433 ACATTATACTCAGCAGCAAGAATACAA 59.230 33.333 0.00 0.00 0.00 2.41
388 389 8.615211 CATTATACTCAGCAGCAAGAATACAAA 58.385 33.333 0.00 0.00 0.00 2.83
389 390 6.674694 ATACTCAGCAGCAAGAATACAAAG 57.325 37.500 0.00 0.00 0.00 2.77
390 391 4.645535 ACTCAGCAGCAAGAATACAAAGA 58.354 39.130 0.00 0.00 0.00 2.52
391 392 5.251764 ACTCAGCAGCAAGAATACAAAGAT 58.748 37.500 0.00 0.00 0.00 2.40
392 393 5.709164 ACTCAGCAGCAAGAATACAAAGATT 59.291 36.000 0.00 0.00 0.00 2.40
393 394 6.208204 ACTCAGCAGCAAGAATACAAAGATTT 59.792 34.615 0.00 0.00 0.00 2.17
394 395 6.384224 TCAGCAGCAAGAATACAAAGATTTG 58.616 36.000 3.79 3.79 43.62 2.32
395 396 5.575606 CAGCAGCAAGAATACAAAGATTTGG 59.424 40.000 9.91 0.00 42.34 3.28
396 397 4.328169 GCAGCAAGAATACAAAGATTTGGC 59.672 41.667 9.91 2.14 42.34 4.52
397 398 5.472148 CAGCAAGAATACAAAGATTTGGCA 58.528 37.500 9.91 0.00 42.34 4.92
398 399 5.575606 CAGCAAGAATACAAAGATTTGGCAG 59.424 40.000 9.91 0.00 42.34 4.85
399 400 5.477984 AGCAAGAATACAAAGATTTGGCAGA 59.522 36.000 9.91 0.00 42.34 4.26
400 401 6.154021 AGCAAGAATACAAAGATTTGGCAGAT 59.846 34.615 9.91 0.00 42.34 2.90
401 402 7.340232 AGCAAGAATACAAAGATTTGGCAGATA 59.660 33.333 9.91 0.00 42.34 1.98
402 403 7.433425 GCAAGAATACAAAGATTTGGCAGATAC 59.567 37.037 9.91 0.00 42.34 2.24
403 404 8.461222 CAAGAATACAAAGATTTGGCAGATACA 58.539 33.333 9.91 0.00 42.34 2.29
404 405 8.579850 AGAATACAAAGATTTGGCAGATACAA 57.420 30.769 9.91 0.00 42.34 2.41
405 406 8.680903 AGAATACAAAGATTTGGCAGATACAAG 58.319 33.333 9.91 0.00 42.34 3.16
406 407 7.944729 ATACAAAGATTTGGCAGATACAAGT 57.055 32.000 9.91 0.00 42.34 3.16
407 408 6.259550 ACAAAGATTTGGCAGATACAAGTC 57.740 37.500 9.91 0.00 42.34 3.01
408 409 5.769662 ACAAAGATTTGGCAGATACAAGTCA 59.230 36.000 9.91 0.00 42.34 3.41
409 410 6.435277 ACAAAGATTTGGCAGATACAAGTCAT 59.565 34.615 9.91 0.00 42.34 3.06
410 411 6.446781 AAGATTTGGCAGATACAAGTCATG 57.553 37.500 0.00 0.00 37.13 3.07
411 412 5.748402 AGATTTGGCAGATACAAGTCATGA 58.252 37.500 0.00 0.00 37.13 3.07
412 413 5.821470 AGATTTGGCAGATACAAGTCATGAG 59.179 40.000 0.00 0.00 37.13 2.90
413 414 4.824479 TTGGCAGATACAAGTCATGAGA 57.176 40.909 0.00 0.00 0.00 3.27
414 415 4.824479 TGGCAGATACAAGTCATGAGAA 57.176 40.909 0.00 0.00 0.00 2.87
415 416 4.507710 TGGCAGATACAAGTCATGAGAAC 58.492 43.478 0.00 0.00 0.00 3.01
416 417 4.020307 TGGCAGATACAAGTCATGAGAACA 60.020 41.667 0.00 0.00 0.00 3.18
417 418 4.937620 GGCAGATACAAGTCATGAGAACAA 59.062 41.667 0.00 0.00 0.00 2.83
418 419 5.064452 GGCAGATACAAGTCATGAGAACAAG 59.936 44.000 0.00 0.00 0.00 3.16
419 420 5.064452 GCAGATACAAGTCATGAGAACAAGG 59.936 44.000 0.00 0.00 0.00 3.61
420 421 6.169094 CAGATACAAGTCATGAGAACAAGGT 58.831 40.000 0.00 0.00 0.00 3.50
421 422 7.323420 CAGATACAAGTCATGAGAACAAGGTA 58.677 38.462 0.00 0.00 0.00 3.08
422 423 7.819415 CAGATACAAGTCATGAGAACAAGGTAA 59.181 37.037 0.00 0.00 0.00 2.85
423 424 8.375506 AGATACAAGTCATGAGAACAAGGTAAA 58.624 33.333 0.00 0.00 0.00 2.01
424 425 8.918202 ATACAAGTCATGAGAACAAGGTAAAA 57.082 30.769 0.00 0.00 0.00 1.52
425 426 7.639113 ACAAGTCATGAGAACAAGGTAAAAA 57.361 32.000 0.00 0.00 0.00 1.94
617 1169 8.037758 AGATAGAAGTCATGACAACAAGGTAAG 58.962 37.037 27.02 0.00 0.00 2.34
700 2150 6.346838 GCAGGTGCTCAAAAATTTGTATCAAC 60.347 38.462 5.84 5.59 39.18 3.18
802 2260 8.785329 TGATGACATAACAAACTAACATGCTA 57.215 30.769 0.00 0.00 0.00 3.49
844 2302 1.073284 GCACTTTTGGGACCAGACCTA 59.927 52.381 0.00 0.00 0.00 3.08
845 2303 2.290960 GCACTTTTGGGACCAGACCTAT 60.291 50.000 0.00 0.00 0.00 2.57
846 2304 3.054655 GCACTTTTGGGACCAGACCTATA 60.055 47.826 0.00 0.00 0.00 1.31
847 2305 4.770795 CACTTTTGGGACCAGACCTATAG 58.229 47.826 0.00 0.00 0.00 1.31
894 2370 3.138304 GTCAACAGGTGCAGTATGACAA 58.862 45.455 11.15 0.00 39.69 3.18
930 2408 2.432206 AACAAAAGCATTACCGGTGC 57.568 45.000 19.93 13.02 42.81 5.01
933 2411 1.269448 CAAAAGCATTACCGGTGCAGT 59.731 47.619 19.93 1.35 44.87 4.40
934 2412 1.165270 AAAGCATTACCGGTGCAGTC 58.835 50.000 19.93 2.27 44.87 3.51
937 2415 0.447801 GCATTACCGGTGCAGTCAAG 59.552 55.000 19.93 0.00 42.08 3.02
940 2418 2.851263 TTACCGGTGCAGTCAAGAAT 57.149 45.000 19.93 0.00 0.00 2.40
1013 2718 6.528537 AAGTTTGCATATGAGTAATGGCAA 57.471 33.333 6.97 0.00 37.81 4.52
1112 2817 7.165485 AGCGACAATATGGCAATACCTATAAA 58.835 34.615 0.00 0.00 40.22 1.40
1150 2855 1.828595 TGACTGCGGGCATAAACTCTA 59.171 47.619 0.00 0.00 0.00 2.43
1323 3093 7.383102 ACAATATTTTGTACCTTCAGAGCAG 57.617 36.000 0.00 0.00 44.22 4.24
1356 3126 4.675190 AGACGATGAAGCAAACAATGAG 57.325 40.909 0.00 0.00 0.00 2.90
1377 3147 5.108187 AGGTTGATGCAAGTCATAGTGAT 57.892 39.130 0.00 0.00 35.05 3.06
1378 3148 4.880120 AGGTTGATGCAAGTCATAGTGATG 59.120 41.667 0.00 0.00 35.05 3.07
1391 3161 5.990386 GTCATAGTGATGCTGAATCTGATGT 59.010 40.000 0.00 0.00 36.15 3.06
1397 3167 2.004733 TGCTGAATCTGATGTTGAGCG 58.995 47.619 0.00 0.00 38.42 5.03
1442 3281 4.913335 ATGAAGATGAAGCAAATCGCAT 57.087 36.364 0.00 0.00 46.13 4.73
1446 3285 4.913335 AGATGAAGCAAATCGCATTGAT 57.087 36.364 4.46 0.00 46.13 2.57
1448 3287 5.998553 AGATGAAGCAAATCGCATTGATAG 58.001 37.500 4.46 0.00 46.13 2.08
1548 3435 9.142515 GAATGCAATAGTGATCAAAATGAAACA 57.857 29.630 0.00 0.00 0.00 2.83
1689 3576 1.390565 AGCAGCAAATGATGAGAGCC 58.609 50.000 2.32 0.00 32.25 4.70
1859 3746 8.494016 AACTATGAAAAGGATAACAGTGCTAC 57.506 34.615 0.00 0.00 0.00 3.58
1864 3751 8.177119 TGAAAAGGATAACAGTGCTACATTTT 57.823 30.769 0.00 0.00 0.00 1.82
1865 3752 8.637986 TGAAAAGGATAACAGTGCTACATTTTT 58.362 29.630 0.00 0.00 0.00 1.94
2342 4264 6.535508 ACAGACAGAAGAAGAAACTACACAAC 59.464 38.462 0.00 0.00 0.00 3.32
2413 4335 0.986019 ACAGTGGGTGGTGACAAGGA 60.986 55.000 0.00 0.00 46.06 3.36
2522 4444 4.036734 GGACTTGATCAGAACTTGCAAACA 59.963 41.667 0.00 0.00 0.00 2.83
3046 4983 5.932619 AAAGGCAGTTCCTAAGTGTTTTT 57.067 34.783 0.00 0.00 46.94 1.94
3238 5175 6.642131 ACAACACAATGTTCAACATATCAAGC 59.358 34.615 2.67 0.00 38.77 4.01
3282 5219 8.635765 AAAATAGAAAGAGATTTGTACCTGCA 57.364 30.769 0.00 0.00 0.00 4.41
3321 5258 2.401583 TCCCATTCATCCAGTCAACG 57.598 50.000 0.00 0.00 0.00 4.10
3329 5269 1.197721 CATCCAGTCAACGGCAAGAAC 59.802 52.381 0.00 0.00 0.00 3.01
3354 5294 8.567948 ACTGAAGGTACAAATGTTGTATTCAAG 58.432 33.333 13.83 11.41 46.73 3.02
3432 5375 4.771590 ATCGCAGAGCATTGAAGAAAAA 57.228 36.364 0.00 0.00 43.63 1.94
3463 5406 9.358872 GAAAATGATTCAATAACAAGGAGAACC 57.641 33.333 0.00 0.00 0.00 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.398318 GGACAGGTGCTTCCAGAACT 59.602 55.000 1.79 0.00 39.02 3.01
1 2 0.108585 TGGACAGGTGCTTCCAGAAC 59.891 55.000 1.79 0.00 36.96 3.01
6 7 2.099756 GCATATTTGGACAGGTGCTTCC 59.900 50.000 0.00 0.00 0.00 3.46
7 8 2.754552 TGCATATTTGGACAGGTGCTTC 59.245 45.455 0.00 0.00 33.95 3.86
17 18 7.767659 GCTATCTATGATGTCTGCATATTTGGA 59.232 37.037 0.00 0.00 35.07 3.53
23 24 6.803366 ATGGCTATCTATGATGTCTGCATA 57.197 37.500 0.00 0.00 35.07 3.14
69 70 7.821595 TGTTTCATGATGCATCTGATTTTTC 57.178 32.000 26.32 14.45 0.00 2.29
116 117 9.734620 CTAAATGTTTCAGAACTGATTGTTTCA 57.265 29.630 5.34 1.10 39.30 2.69
117 118 9.736023 ACTAAATGTTTCAGAACTGATTGTTTC 57.264 29.630 5.34 0.00 39.30 2.78
200 201 6.656902 TCATGACTTCTATCTGCCAAATCTT 58.343 36.000 0.00 0.00 0.00 2.40
206 207 4.467438 TGTTCTCATGACTTCTATCTGCCA 59.533 41.667 0.00 0.00 0.00 4.92
207 208 5.016051 TGTTCTCATGACTTCTATCTGCC 57.984 43.478 0.00 0.00 0.00 4.85
263 264 9.791820 CTCTGTTTTTGTTTCATGATGCATATA 57.208 29.630 0.00 0.00 0.00 0.86
264 265 8.525316 TCTCTGTTTTTGTTTCATGATGCATAT 58.475 29.630 0.00 0.00 0.00 1.78
265 266 7.884257 TCTCTGTTTTTGTTTCATGATGCATA 58.116 30.769 0.00 0.00 0.00 3.14
266 267 6.751157 TCTCTGTTTTTGTTTCATGATGCAT 58.249 32.000 0.00 0.00 0.00 3.96
267 268 6.146601 TCTCTGTTTTTGTTTCATGATGCA 57.853 33.333 0.00 0.00 0.00 3.96
268 269 5.632347 CCTCTCTGTTTTTGTTTCATGATGC 59.368 40.000 0.00 0.00 0.00 3.91
269 270 5.632347 GCCTCTCTGTTTTTGTTTCATGATG 59.368 40.000 0.00 0.00 0.00 3.07
270 271 5.537674 AGCCTCTCTGTTTTTGTTTCATGAT 59.462 36.000 0.00 0.00 0.00 2.45
271 272 4.889409 AGCCTCTCTGTTTTTGTTTCATGA 59.111 37.500 0.00 0.00 0.00 3.07
272 273 5.192327 AGCCTCTCTGTTTTTGTTTCATG 57.808 39.130 0.00 0.00 0.00 3.07
273 274 6.547510 AGTTAGCCTCTCTGTTTTTGTTTCAT 59.452 34.615 0.00 0.00 0.00 2.57
274 275 5.885912 AGTTAGCCTCTCTGTTTTTGTTTCA 59.114 36.000 0.00 0.00 0.00 2.69
275 276 6.378710 AGTTAGCCTCTCTGTTTTTGTTTC 57.621 37.500 0.00 0.00 0.00 2.78
276 277 8.465273 AATAGTTAGCCTCTCTGTTTTTGTTT 57.535 30.769 0.00 0.00 0.00 2.83
277 278 7.939588 AGAATAGTTAGCCTCTCTGTTTTTGTT 59.060 33.333 0.00 0.00 0.00 2.83
278 279 7.389053 CAGAATAGTTAGCCTCTCTGTTTTTGT 59.611 37.037 0.00 0.00 32.41 2.83
279 280 7.604164 TCAGAATAGTTAGCCTCTCTGTTTTTG 59.396 37.037 0.00 0.00 35.87 2.44
280 281 7.680730 TCAGAATAGTTAGCCTCTCTGTTTTT 58.319 34.615 0.00 0.00 35.87 1.94
281 282 7.246171 TCAGAATAGTTAGCCTCTCTGTTTT 57.754 36.000 0.00 0.00 35.87 2.43
282 283 6.859112 TCAGAATAGTTAGCCTCTCTGTTT 57.141 37.500 0.00 0.00 35.87 2.83
283 284 6.859112 TTCAGAATAGTTAGCCTCTCTGTT 57.141 37.500 0.00 0.00 35.87 3.16
284 285 6.211584 TGTTTCAGAATAGTTAGCCTCTCTGT 59.788 38.462 0.00 0.00 35.87 3.41
285 286 6.634805 TGTTTCAGAATAGTTAGCCTCTCTG 58.365 40.000 0.00 0.00 35.79 3.35
286 287 6.439058 ACTGTTTCAGAATAGTTAGCCTCTCT 59.561 38.462 3.70 0.00 34.01 3.10
287 288 6.635755 ACTGTTTCAGAATAGTTAGCCTCTC 58.364 40.000 3.70 0.00 34.01 3.20
288 289 6.211584 TGACTGTTTCAGAATAGTTAGCCTCT 59.788 38.462 3.70 0.00 37.35 3.69
289 290 6.398918 TGACTGTTTCAGAATAGTTAGCCTC 58.601 40.000 3.70 0.00 37.35 4.70
290 291 6.360370 TGACTGTTTCAGAATAGTTAGCCT 57.640 37.500 3.70 0.00 37.35 4.58
303 304 6.757897 AATGTTTCAGAACTGACTGTTTCA 57.242 33.333 3.88 0.00 39.66 2.69
304 305 8.398665 ACTAAATGTTTCAGAACTGACTGTTTC 58.601 33.333 3.88 0.00 39.66 2.78
305 306 8.281212 ACTAAATGTTTCAGAACTGACTGTTT 57.719 30.769 3.88 6.49 39.66 2.83
306 307 7.865706 ACTAAATGTTTCAGAACTGACTGTT 57.134 32.000 3.88 0.00 39.66 3.16
307 308 7.865706 AACTAAATGTTTCAGAACTGACTGT 57.134 32.000 3.88 0.00 39.66 3.55
321 322 9.643693 CCTGAGAATGCAAATTAACTAAATGTT 57.356 29.630 0.00 0.00 42.31 2.71
322 323 8.806146 ACCTGAGAATGCAAATTAACTAAATGT 58.194 29.630 0.00 0.00 0.00 2.71
325 326 8.736244 GGTACCTGAGAATGCAAATTAACTAAA 58.264 33.333 4.06 0.00 0.00 1.85
326 327 8.107095 AGGTACCTGAGAATGCAAATTAACTAA 58.893 33.333 15.42 0.00 0.00 2.24
327 328 7.630082 AGGTACCTGAGAATGCAAATTAACTA 58.370 34.615 15.42 0.00 0.00 2.24
328 329 6.485171 AGGTACCTGAGAATGCAAATTAACT 58.515 36.000 15.42 0.00 0.00 2.24
329 330 6.759497 AGGTACCTGAGAATGCAAATTAAC 57.241 37.500 15.42 0.00 0.00 2.01
330 331 8.871629 TTTAGGTACCTGAGAATGCAAATTAA 57.128 30.769 25.33 2.15 0.00 1.40
331 332 8.871629 TTTTAGGTACCTGAGAATGCAAATTA 57.128 30.769 25.33 0.00 0.00 1.40
332 333 7.775053 TTTTAGGTACCTGAGAATGCAAATT 57.225 32.000 25.33 0.00 0.00 1.82
333 334 7.961326 ATTTTAGGTACCTGAGAATGCAAAT 57.039 32.000 25.33 8.07 0.00 2.32
334 335 7.601856 CAATTTTAGGTACCTGAGAATGCAAA 58.398 34.615 25.33 11.15 0.00 3.68
335 336 6.350110 GCAATTTTAGGTACCTGAGAATGCAA 60.350 38.462 24.28 9.72 0.00 4.08
336 337 5.125417 GCAATTTTAGGTACCTGAGAATGCA 59.875 40.000 24.28 2.92 0.00 3.96
337 338 5.125417 TGCAATTTTAGGTACCTGAGAATGC 59.875 40.000 23.12 23.12 0.00 3.56
338 339 6.150976 TGTGCAATTTTAGGTACCTGAGAATG 59.849 38.462 25.33 15.46 0.00 2.67
339 340 6.245408 TGTGCAATTTTAGGTACCTGAGAAT 58.755 36.000 25.33 16.98 0.00 2.40
340 341 5.626142 TGTGCAATTTTAGGTACCTGAGAA 58.374 37.500 25.33 15.52 0.00 2.87
341 342 5.235850 TGTGCAATTTTAGGTACCTGAGA 57.764 39.130 25.33 12.31 0.00 3.27
342 343 6.515272 AATGTGCAATTTTAGGTACCTGAG 57.485 37.500 25.33 5.49 0.00 3.35
343 344 9.116067 GTATAATGTGCAATTTTAGGTACCTGA 57.884 33.333 25.33 14.27 0.00 3.86
344 345 9.120538 AGTATAATGTGCAATTTTAGGTACCTG 57.879 33.333 25.33 8.48 0.00 4.00
345 346 9.338622 GAGTATAATGTGCAATTTTAGGTACCT 57.661 33.333 20.57 20.57 0.00 3.08
346 347 9.116067 TGAGTATAATGTGCAATTTTAGGTACC 57.884 33.333 2.73 2.73 0.00 3.34
348 349 8.836413 GCTGAGTATAATGTGCAATTTTAGGTA 58.164 33.333 0.00 0.00 0.00 3.08
349 350 7.339212 TGCTGAGTATAATGTGCAATTTTAGGT 59.661 33.333 0.00 0.00 0.00 3.08
350 351 7.706159 TGCTGAGTATAATGTGCAATTTTAGG 58.294 34.615 0.00 0.00 0.00 2.69
351 352 7.377928 GCTGCTGAGTATAATGTGCAATTTTAG 59.622 37.037 0.00 0.00 0.00 1.85
352 353 7.148103 TGCTGCTGAGTATAATGTGCAATTTTA 60.148 33.333 0.00 0.00 0.00 1.52
353 354 6.038356 GCTGCTGAGTATAATGTGCAATTTT 58.962 36.000 0.00 0.00 0.00 1.82
354 355 5.125900 TGCTGCTGAGTATAATGTGCAATTT 59.874 36.000 0.00 0.00 0.00 1.82
355 356 4.641541 TGCTGCTGAGTATAATGTGCAATT 59.358 37.500 0.00 0.00 0.00 2.32
356 357 4.201657 TGCTGCTGAGTATAATGTGCAAT 58.798 39.130 0.00 0.00 0.00 3.56
357 358 3.608796 TGCTGCTGAGTATAATGTGCAA 58.391 40.909 0.00 0.00 0.00 4.08
358 359 3.264998 TGCTGCTGAGTATAATGTGCA 57.735 42.857 0.00 0.00 0.00 4.57
359 360 3.873361 TCTTGCTGCTGAGTATAATGTGC 59.127 43.478 0.00 0.00 0.00 4.57
360 361 6.615264 ATTCTTGCTGCTGAGTATAATGTG 57.385 37.500 0.00 0.00 0.00 3.21
361 362 7.275183 TGTATTCTTGCTGCTGAGTATAATGT 58.725 34.615 0.00 0.00 0.00 2.71
362 363 7.719778 TGTATTCTTGCTGCTGAGTATAATG 57.280 36.000 0.00 0.00 0.00 1.90
363 364 8.737168 TTTGTATTCTTGCTGCTGAGTATAAT 57.263 30.769 0.00 0.00 0.00 1.28
364 365 8.040727 TCTTTGTATTCTTGCTGCTGAGTATAA 58.959 33.333 0.00 3.14 0.00 0.98
365 366 7.555965 TCTTTGTATTCTTGCTGCTGAGTATA 58.444 34.615 0.00 0.63 0.00 1.47
366 367 6.409704 TCTTTGTATTCTTGCTGCTGAGTAT 58.590 36.000 0.00 1.55 0.00 2.12
367 368 5.793817 TCTTTGTATTCTTGCTGCTGAGTA 58.206 37.500 0.00 0.00 0.00 2.59
368 369 4.645535 TCTTTGTATTCTTGCTGCTGAGT 58.354 39.130 0.00 0.00 0.00 3.41
369 370 5.814764 ATCTTTGTATTCTTGCTGCTGAG 57.185 39.130 0.00 0.00 0.00 3.35
370 371 6.384224 CAAATCTTTGTATTCTTGCTGCTGA 58.616 36.000 0.00 0.00 33.59 4.26
371 372 5.575606 CCAAATCTTTGTATTCTTGCTGCTG 59.424 40.000 0.00 0.00 36.45 4.41
372 373 5.717119 CCAAATCTTTGTATTCTTGCTGCT 58.283 37.500 0.00 0.00 36.45 4.24
373 374 4.328169 GCCAAATCTTTGTATTCTTGCTGC 59.672 41.667 0.00 0.00 36.45 5.25
374 375 5.472148 TGCCAAATCTTTGTATTCTTGCTG 58.528 37.500 2.29 0.00 36.45 4.41
375 376 5.477984 TCTGCCAAATCTTTGTATTCTTGCT 59.522 36.000 2.29 0.00 36.45 3.91
376 377 5.713025 TCTGCCAAATCTTTGTATTCTTGC 58.287 37.500 2.29 0.00 36.45 4.01
377 378 8.461222 TGTATCTGCCAAATCTTTGTATTCTTG 58.539 33.333 2.29 0.00 36.45 3.02
378 379 8.579850 TGTATCTGCCAAATCTTTGTATTCTT 57.420 30.769 2.29 0.00 36.45 2.52
379 380 8.579850 TTGTATCTGCCAAATCTTTGTATTCT 57.420 30.769 2.29 0.00 36.45 2.40
380 381 8.462016 ACTTGTATCTGCCAAATCTTTGTATTC 58.538 33.333 2.29 0.00 36.45 1.75
381 382 8.353423 ACTTGTATCTGCCAAATCTTTGTATT 57.647 30.769 2.29 0.00 36.45 1.89
382 383 7.611467 TGACTTGTATCTGCCAAATCTTTGTAT 59.389 33.333 2.29 0.00 36.45 2.29
383 384 6.939730 TGACTTGTATCTGCCAAATCTTTGTA 59.060 34.615 2.29 0.00 36.45 2.41
384 385 5.769662 TGACTTGTATCTGCCAAATCTTTGT 59.230 36.000 2.29 0.00 36.45 2.83
385 386 6.258230 TGACTTGTATCTGCCAAATCTTTG 57.742 37.500 0.00 0.00 37.90 2.77
386 387 6.660521 TCATGACTTGTATCTGCCAAATCTTT 59.339 34.615 0.00 0.00 0.00 2.52
387 388 6.182627 TCATGACTTGTATCTGCCAAATCTT 58.817 36.000 0.00 0.00 0.00 2.40
388 389 5.748402 TCATGACTTGTATCTGCCAAATCT 58.252 37.500 0.00 0.00 0.00 2.40
389 390 5.819379 TCTCATGACTTGTATCTGCCAAATC 59.181 40.000 0.00 0.00 0.00 2.17
390 391 5.748402 TCTCATGACTTGTATCTGCCAAAT 58.252 37.500 0.00 0.00 0.00 2.32
391 392 5.164620 TCTCATGACTTGTATCTGCCAAA 57.835 39.130 0.00 0.00 0.00 3.28
392 393 4.824479 TCTCATGACTTGTATCTGCCAA 57.176 40.909 0.00 0.00 0.00 4.52
393 394 4.020307 TGTTCTCATGACTTGTATCTGCCA 60.020 41.667 0.00 0.00 0.00 4.92
394 395 4.507710 TGTTCTCATGACTTGTATCTGCC 58.492 43.478 0.00 0.00 0.00 4.85
395 396 5.064452 CCTTGTTCTCATGACTTGTATCTGC 59.936 44.000 0.00 0.00 0.00 4.26
396 397 6.169094 ACCTTGTTCTCATGACTTGTATCTG 58.831 40.000 0.00 0.00 0.00 2.90
397 398 6.365970 ACCTTGTTCTCATGACTTGTATCT 57.634 37.500 0.00 0.00 0.00 1.98
398 399 8.547967 TTTACCTTGTTCTCATGACTTGTATC 57.452 34.615 0.00 0.00 0.00 2.24
399 400 8.918202 TTTTACCTTGTTCTCATGACTTGTAT 57.082 30.769 0.00 0.00 0.00 2.29
400 401 8.740123 TTTTTACCTTGTTCTCATGACTTGTA 57.260 30.769 0.00 0.00 0.00 2.41
401 402 7.639113 TTTTTACCTTGTTCTCATGACTTGT 57.361 32.000 0.00 0.00 0.00 3.16
402 403 6.638468 GCTTTTTACCTTGTTCTCATGACTTG 59.362 38.462 0.00 0.00 0.00 3.16
403 404 6.321181 TGCTTTTTACCTTGTTCTCATGACTT 59.679 34.615 0.00 0.00 0.00 3.01
404 405 5.827797 TGCTTTTTACCTTGTTCTCATGACT 59.172 36.000 0.00 0.00 0.00 3.41
405 406 6.072112 TGCTTTTTACCTTGTTCTCATGAC 57.928 37.500 0.00 0.00 0.00 3.06
406 407 6.899393 ATGCTTTTTACCTTGTTCTCATGA 57.101 33.333 0.00 0.00 0.00 3.07
407 408 9.474920 TTTTATGCTTTTTACCTTGTTCTCATG 57.525 29.630 0.00 0.00 0.00 3.07
409 410 9.308318 GTTTTTATGCTTTTTACCTTGTTCTCA 57.692 29.630 0.00 0.00 0.00 3.27
410 411 9.529325 AGTTTTTATGCTTTTTACCTTGTTCTC 57.471 29.630 0.00 0.00 0.00 2.87
411 412 9.884636 AAGTTTTTATGCTTTTTACCTTGTTCT 57.115 25.926 0.00 0.00 0.00 3.01
413 414 9.104965 GGAAGTTTTTATGCTTTTTACCTTGTT 57.895 29.630 0.00 0.00 0.00 2.83
414 415 8.482943 AGGAAGTTTTTATGCTTTTTACCTTGT 58.517 29.630 0.00 0.00 0.00 3.16
415 416 8.887036 AGGAAGTTTTTATGCTTTTTACCTTG 57.113 30.769 0.00 0.00 0.00 3.61
700 2150 1.270971 GGCTGCATATGTTTGTTGCG 58.729 50.000 4.29 0.00 39.23 4.85
745 2195 6.391227 AAATGAACACAAACTAACCTCAGG 57.609 37.500 0.00 0.00 0.00 3.86
844 2302 5.219739 TCTTTCTGTCTAGGAATGGGCTAT 58.780 41.667 0.00 0.00 0.00 2.97
845 2303 4.620723 TCTTTCTGTCTAGGAATGGGCTA 58.379 43.478 0.00 0.00 0.00 3.93
846 2304 3.454858 TCTTTCTGTCTAGGAATGGGCT 58.545 45.455 0.00 0.00 0.00 5.19
847 2305 3.914426 TCTTTCTGTCTAGGAATGGGC 57.086 47.619 0.00 0.00 0.00 5.36
925 2403 3.837213 AAATCATTCTTGACTGCACCG 57.163 42.857 0.00 0.00 33.85 4.94
1013 2718 2.108566 CTCCATGCGCTGCTAGCT 59.891 61.111 17.23 0.00 39.60 3.32
1026 2731 2.036604 TGTGTAAGATTGTGCGACTCCA 59.963 45.455 0.00 0.00 0.00 3.86
1112 2817 5.278169 GCAGTCAAGAATGATGTGAAACTGT 60.278 40.000 1.20 0.00 38.01 3.55
1150 2855 8.574251 TTGATTGCAGTAATACAACATACCTT 57.426 30.769 0.00 0.00 0.00 3.50
1225 2937 6.525976 GCTTGATGCTGATACAAGTTCTTTTC 59.474 38.462 0.00 0.00 41.73 2.29
1320 3090 1.005340 CGTCTTCTTCATGCTCCTGC 58.995 55.000 0.00 0.00 40.20 4.85
1323 3093 3.170791 TCATCGTCTTCTTCATGCTCC 57.829 47.619 0.00 0.00 0.00 4.70
1356 3126 4.497006 GCATCACTATGACTTGCATCAACC 60.497 45.833 0.00 0.00 38.44 3.77
1377 3147 2.004733 CGCTCAACATCAGATTCAGCA 58.995 47.619 0.00 0.00 0.00 4.41
1378 3148 2.005451 ACGCTCAACATCAGATTCAGC 58.995 47.619 0.00 0.00 0.00 4.26
1391 3161 2.768253 ATCACCATCTTCACGCTCAA 57.232 45.000 0.00 0.00 0.00 3.02
1397 3167 6.817765 TGTTTCCTTTATCACCATCTTCAC 57.182 37.500 0.00 0.00 0.00 3.18
1442 3281 5.104817 TGCTCACCATCAGATTCACTATCAA 60.105 40.000 0.00 0.00 35.59 2.57
1446 3285 4.406649 TCATGCTCACCATCAGATTCACTA 59.593 41.667 0.00 0.00 29.71 2.74
1448 3287 3.538591 TCATGCTCACCATCAGATTCAC 58.461 45.455 0.00 0.00 29.71 3.18
1548 3435 3.713764 CCAGGTAATCTTCCTCCACATCT 59.286 47.826 0.00 0.00 32.37 2.90
1630 3517 6.267471 TGATAGTTCCAACTTTGCTCCAAATT 59.733 34.615 0.00 0.00 40.37 1.82
1689 3576 5.672321 GCTCCTTGCTTTTACTTCTTGATCG 60.672 44.000 0.00 0.00 38.95 3.69
1844 3731 9.686683 ATTCTAAAAATGTAGCACTGTTATCCT 57.313 29.630 0.00 0.00 0.00 3.24
1865 3752 9.557061 CATTCTGATCCTCTTCATTTGATTCTA 57.443 33.333 0.00 0.00 0.00 2.10
2012 3930 6.639563 TCTTCTTGGCTTAATTTAATTGCCC 58.360 36.000 13.98 6.42 42.62 5.36
2342 4264 4.816385 TCTGAGCTTGACAACCTGTTTTAG 59.184 41.667 0.00 0.00 0.00 1.85
2413 4335 8.410912 CAGGTCATGATTGTGTTCAATGATAAT 58.589 33.333 0.00 0.00 43.33 1.28
2522 4444 6.152932 TCTTTCTAGTTGGTACGTTCACTT 57.847 37.500 0.00 0.00 0.00 3.16
2530 4452 7.859325 TTGCCATAATCTTTCTAGTTGGTAC 57.141 36.000 0.00 0.00 0.00 3.34
2936 4872 8.664211 AAAAGTTTTGTACAACCACTCAAAAA 57.336 26.923 16.50 0.82 40.02 1.94
3046 4983 2.038952 AGTTCCTGTGCATGCAACTAGA 59.961 45.455 24.58 14.07 0.00 2.43
3196 5133 0.550914 TGTTGTATCATCTGGGGCCC 59.449 55.000 18.17 18.17 0.00 5.80
3238 5175 5.637006 TTTTTCCACATAATCCCGAAGTG 57.363 39.130 0.00 0.00 0.00 3.16
3285 5222 7.790027 TGAATGGGAAAAAGTCATTCTTGAAA 58.210 30.769 13.90 0.00 44.03 2.69
3321 5258 4.278419 ACATTTGTACCTTCAGTTCTTGCC 59.722 41.667 0.00 0.00 0.00 4.52
3354 5294 2.790433 TGACTTGACCCTACATTTGCC 58.210 47.619 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.