Multiple sequence alignment - TraesCS5B01G482000

Loading Multiple Alignment...

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 TraesCS5B01G482000 chr5B 100.000 2378 0 0 1 2378 654893797 654891420 0.000000e+00 4392.0
1 TraesCS5B01G482000 chr5B 92.432 185 14 0 1001 1185 654898933 654898749 5.040000e-67 265.0
2 TraesCS5B01G482000 chr5B 86.935 199 20 1 1001 1193 654904496 654904298 3.980000e-53 219.0
3 TraesCS5B01G482000 chr5B 83.981 206 30 3 1218 1420 654898659 654898454 6.710000e-46 195.0
4 TraesCS5B01G482000 chr6D 89.963 807 68 5 1585 2378 470029160 470028354 0.000000e+00 1029.0
5 TraesCS5B01G482000 chr6D 88.504 809 75 10 1585 2377 20341209 20340403 0.000000e+00 963.0
6 TraesCS5B01G482000 chr5D 89.975 808 66 5 1585 2378 392071127 392070321 0.000000e+00 1029.0
7 TraesCS5B01G482000 chr5D 92.534 442 26 4 489 924 519809113 519808673 5.580000e-176 627.0
8 TraesCS5B01G482000 chr5D 94.886 352 16 2 1 352 519809548 519809199 1.240000e-152 549.0
9 TraesCS5B01G482000 chr5D 88.685 327 19 11 1206 1529 519808322 519808011 1.330000e-102 383.0
10 TraesCS5B01G482000 chr5D 95.319 235 11 0 960 1194 519808601 519808367 8.030000e-100 374.0
11 TraesCS5B01G482000 chr5D 87.317 205 20 4 994 1193 519813604 519813401 1.840000e-56 230.0
12 TraesCS5B01G482000 chr5D 85.354 198 17 2 1008 1193 519821738 519821541 6.710000e-46 195.0
13 TraesCS5B01G482000 chr5D 86.705 173 16 5 493 663 519814283 519814116 4.040000e-43 185.0
14 TraesCS5B01G482000 chr5D 100.000 33 0 0 455 487 519809199 519809167 7.100000e-06 62.1
15 TraesCS5B01G482000 chr3B 89.604 808 70 4 1585 2378 734437801 734438608 0.000000e+00 1014.0
16 TraesCS5B01G482000 chr7B 89.760 791 62 7 1602 2378 199998331 199997546 0.000000e+00 994.0
17 TraesCS5B01G482000 chr7B 88.073 654 64 5 1738 2378 144099686 144099034 0.000000e+00 763.0
18 TraesCS5B01G482000 chr1D 88.656 811 73 9 1585 2377 427323736 427324545 0.000000e+00 970.0
19 TraesCS5B01G482000 chr2D 88.614 808 76 8 1585 2377 619051740 619050934 0.000000e+00 968.0
20 TraesCS5B01G482000 chr2D 87.717 806 84 8 1585 2375 155469821 155469016 0.000000e+00 926.0
21 TraesCS5B01G482000 chr3A 88.504 809 76 9 1585 2377 991801 990994 0.000000e+00 963.0
22 TraesCS5B01G482000 chr3D 87.980 807 79 9 1585 2375 138897373 138898177 0.000000e+00 937.0
23 TraesCS5B01G482000 chr4D 87.841 806 83 7 1585 2375 52760860 52760055 0.000000e+00 931.0
24 TraesCS5B01G482000 chr1B 87.639 809 84 6 1585 2378 431011492 431010685 0.000000e+00 926.0
25 TraesCS5B01G482000 chr1B 90.084 474 33 4 1918 2378 533958965 533959437 9.400000e-169 603.0
26 TraesCS5B01G482000 chrUn 88.798 366 28 3 2026 2378 345679429 345679064 1.010000e-118 436.0
27 TraesCS5B01G482000 chrUn 88.525 366 29 3 2026 2378 247420673 247420308 4.700000e-117 431.0
28 TraesCS5B01G482000 chrUn 88.525 366 29 3 2026 2378 389103753 389103388 4.700000e-117 431.0
29 TraesCS5B01G482000 chrUn 88.525 366 29 3 2026 2378 403557728 403558093 4.700000e-117 431.0
30 TraesCS5B01G482000 chr5A 90.123 243 16 2 665 906 646556771 646556536 2.300000e-80 309.0
31 TraesCS5B01G482000 chr5A 90.686 204 15 2 994 1193 646564842 646564639 3.900000e-68 268.0
32 TraesCS5B01G482000 chr5A 90.761 184 16 1 484 667 646557012 646556830 6.570000e-61 244.0
33 TraesCS5B01G482000 chr5A 88.421 190 19 1 949 1135 646556472 646556283 2.380000e-55 226.0
34 TraesCS5B01G482000 chr5A 87.500 200 17 4 1001 1193 646597161 646596963 8.550000e-55 224.0
35 TraesCS5B01G482000 chr5A 89.510 143 15 0 1218 1360 646564569 646564427 5.220000e-42 182.0
36 TraesCS5B01G482000 chr5A 87.302 126 15 1 191 315 646557455 646557330 2.460000e-30 143.0
37 TraesCS5B01G482000 chr5A 83.158 95 16 0 1010 1104 646833123 646833029 1.170000e-13 87.9


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 TraesCS5B01G482000 chr5B 654891420 654893797 2377 True 4392.0 4392 100.000000 1 2378 1 chr5B.!!$R1 2377
1 TraesCS5B01G482000 chr6D 470028354 470029160 806 True 1029.0 1029 89.963000 1585 2378 1 chr6D.!!$R2 793
2 TraesCS5B01G482000 chr6D 20340403 20341209 806 True 963.0 963 88.504000 1585 2377 1 chr6D.!!$R1 792
3 TraesCS5B01G482000 chr5D 392070321 392071127 806 True 1029.0 1029 89.975000 1585 2378 1 chr5D.!!$R1 793
4 TraesCS5B01G482000 chr5D 519808011 519814283 6272 True 344.3 627 92.206571 1 1529 7 chr5D.!!$R3 1528
5 TraesCS5B01G482000 chr3B 734437801 734438608 807 False 1014.0 1014 89.604000 1585 2378 1 chr3B.!!$F1 793
6 TraesCS5B01G482000 chr7B 199997546 199998331 785 True 994.0 994 89.760000 1602 2378 1 chr7B.!!$R2 776
7 TraesCS5B01G482000 chr7B 144099034 144099686 652 True 763.0 763 88.073000 1738 2378 1 chr7B.!!$R1 640
8 TraesCS5B01G482000 chr1D 427323736 427324545 809 False 970.0 970 88.656000 1585 2377 1 chr1D.!!$F1 792
9 TraesCS5B01G482000 chr2D 619050934 619051740 806 True 968.0 968 88.614000 1585 2377 1 chr2D.!!$R2 792
10 TraesCS5B01G482000 chr2D 155469016 155469821 805 True 926.0 926 87.717000 1585 2375 1 chr2D.!!$R1 790
11 TraesCS5B01G482000 chr3A 990994 991801 807 True 963.0 963 88.504000 1585 2377 1 chr3A.!!$R1 792
12 TraesCS5B01G482000 chr3D 138897373 138898177 804 False 937.0 937 87.980000 1585 2375 1 chr3D.!!$F1 790
13 TraesCS5B01G482000 chr4D 52760055 52760860 805 True 931.0 931 87.841000 1585 2375 1 chr4D.!!$R1 790
14 TraesCS5B01G482000 chr1B 431010685 431011492 807 True 926.0 926 87.639000 1585 2378 1 chr1B.!!$R1 793
15 TraesCS5B01G482000 chr5A 646556283 646557455 1172 True 230.5 309 89.151750 191 1135 4 chr5A.!!$R3 944

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
413 5249 0.037447 GAGCTGAAGGTTCCCTGCTT 59.963 55.0 0.0 0.0 32.13 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2269 7420 0.035881 TCGAGTCCGTGTACACCTCT 59.964 55.0 20.11 14.7 37.05 3.69 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
97 4833 9.950496 AATATTTCAGAGTTACAGTCAGACAAT 57.050 29.630 2.66 0.00 0.00 2.71
183 4919 6.594159 TCTTATTTAACAAGAGGTGTGCTAGC 59.406 38.462 8.10 8.10 40.60 3.42
184 4920 2.363788 TAACAAGAGGTGTGCTAGCG 57.636 50.000 10.77 0.00 40.60 4.26
285 5022 8.548025 TCTATTTATGTTCCAGAATCCTTGTCA 58.452 33.333 0.00 0.00 0.00 3.58
297 5034 5.997746 AGAATCCTTGTCAAAACGAGATCAA 59.002 36.000 0.00 0.00 38.99 2.57
307 5044 7.333423 TGTCAAAACGAGATCAAATAACTAGGG 59.667 37.037 0.00 0.00 0.00 3.53
308 5045 7.548075 GTCAAAACGAGATCAAATAACTAGGGA 59.452 37.037 0.00 0.00 0.00 4.20
359 5195 5.337578 TTGGCATTCAAGTAATAAAGGCC 57.662 39.130 0.00 0.00 46.97 5.19
361 5197 4.682787 GGCATTCAAGTAATAAAGGCCAC 58.317 43.478 5.01 0.00 46.28 5.01
362 5198 4.159506 GGCATTCAAGTAATAAAGGCCACA 59.840 41.667 5.01 0.00 46.28 4.17
363 5199 5.337169 GGCATTCAAGTAATAAAGGCCACAA 60.337 40.000 5.01 0.00 46.28 3.33
364 5200 6.340522 GCATTCAAGTAATAAAGGCCACAAT 58.659 36.000 5.01 0.00 0.00 2.71
365 5201 7.417342 GGCATTCAAGTAATAAAGGCCACAATA 60.417 37.037 5.01 0.00 46.28 1.90
366 5202 7.649306 GCATTCAAGTAATAAAGGCCACAATAG 59.351 37.037 5.01 0.00 0.00 1.73
367 5203 8.902806 CATTCAAGTAATAAAGGCCACAATAGA 58.097 33.333 5.01 0.00 0.00 1.98
368 5204 9.646522 ATTCAAGTAATAAAGGCCACAATAGAT 57.353 29.630 5.01 0.00 0.00 1.98
369 5205 9.474313 TTCAAGTAATAAAGGCCACAATAGATT 57.526 29.630 5.01 0.00 0.00 2.40
370 5206 9.474313 TCAAGTAATAAAGGCCACAATAGATTT 57.526 29.630 5.01 0.00 0.00 2.17
371 5207 9.520204 CAAGTAATAAAGGCCACAATAGATTTG 57.480 33.333 5.01 0.00 0.00 2.32
372 5208 8.237811 AGTAATAAAGGCCACAATAGATTTGG 57.762 34.615 5.01 0.00 0.00 3.28
373 5209 7.839200 AGTAATAAAGGCCACAATAGATTTGGT 59.161 33.333 5.01 0.00 32.50 3.67
374 5210 4.806640 AAAGGCCACAATAGATTTGGTG 57.193 40.909 5.01 0.00 32.50 4.17
375 5211 3.737559 AGGCCACAATAGATTTGGTGA 57.262 42.857 5.01 0.00 33.16 4.02
376 5212 4.046286 AGGCCACAATAGATTTGGTGAA 57.954 40.909 5.01 0.00 33.16 3.18
377 5213 4.613437 AGGCCACAATAGATTTGGTGAAT 58.387 39.130 5.01 0.00 33.16 2.57
378 5214 4.403432 AGGCCACAATAGATTTGGTGAATG 59.597 41.667 5.01 0.00 33.16 2.67
379 5215 4.160252 GGCCACAATAGATTTGGTGAATGT 59.840 41.667 0.00 0.00 33.16 2.71
380 5216 5.343249 GCCACAATAGATTTGGTGAATGTC 58.657 41.667 0.00 0.00 33.16 3.06
381 5217 5.572211 CCACAATAGATTTGGTGAATGTCG 58.428 41.667 0.00 0.00 33.16 4.35
382 5218 5.353956 CCACAATAGATTTGGTGAATGTCGA 59.646 40.000 0.00 0.00 33.16 4.20
383 5219 6.038603 CCACAATAGATTTGGTGAATGTCGAT 59.961 38.462 0.00 0.00 33.16 3.59
384 5220 7.415541 CCACAATAGATTTGGTGAATGTCGATT 60.416 37.037 0.00 0.00 33.16 3.34
385 5221 7.970061 CACAATAGATTTGGTGAATGTCGATTT 59.030 33.333 0.00 0.00 33.16 2.17
386 5222 8.184192 ACAATAGATTTGGTGAATGTCGATTTC 58.816 33.333 0.00 0.00 0.00 2.17
387 5223 8.400947 CAATAGATTTGGTGAATGTCGATTTCT 58.599 33.333 11.04 0.00 0.00 2.52
388 5224 6.187125 AGATTTGGTGAATGTCGATTTCTG 57.813 37.500 11.04 0.00 0.00 3.02
389 5225 5.939883 AGATTTGGTGAATGTCGATTTCTGA 59.060 36.000 11.04 0.00 0.00 3.27
390 5226 5.356882 TTTGGTGAATGTCGATTTCTGAC 57.643 39.130 11.04 3.88 36.88 3.51
391 5227 4.271696 TGGTGAATGTCGATTTCTGACT 57.728 40.909 11.04 0.00 37.26 3.41
392 5228 4.641396 TGGTGAATGTCGATTTCTGACTT 58.359 39.130 11.04 0.00 37.26 3.01
393 5229 4.452114 TGGTGAATGTCGATTTCTGACTTG 59.548 41.667 11.04 0.00 37.26 3.16
394 5230 4.142816 GGTGAATGTCGATTTCTGACTTGG 60.143 45.833 11.04 0.00 37.26 3.61
395 5231 4.690748 GTGAATGTCGATTTCTGACTTGGA 59.309 41.667 11.04 0.00 37.26 3.53
396 5232 4.931601 TGAATGTCGATTTCTGACTTGGAG 59.068 41.667 11.04 0.00 37.26 3.86
397 5233 2.688507 TGTCGATTTCTGACTTGGAGC 58.311 47.619 0.00 0.00 37.26 4.70
398 5234 2.300152 TGTCGATTTCTGACTTGGAGCT 59.700 45.455 0.00 0.00 37.26 4.09
399 5235 2.670414 GTCGATTTCTGACTTGGAGCTG 59.330 50.000 0.00 0.00 33.54 4.24
400 5236 2.562738 TCGATTTCTGACTTGGAGCTGA 59.437 45.455 0.00 0.00 0.00 4.26
401 5237 3.006859 TCGATTTCTGACTTGGAGCTGAA 59.993 43.478 0.00 0.00 0.00 3.02
402 5238 3.370366 CGATTTCTGACTTGGAGCTGAAG 59.630 47.826 0.00 0.00 0.00 3.02
403 5239 2.847327 TTCTGACTTGGAGCTGAAGG 57.153 50.000 0.00 0.00 0.00 3.46
404 5240 1.722034 TCTGACTTGGAGCTGAAGGT 58.278 50.000 0.00 0.00 0.00 3.50
405 5241 2.050144 TCTGACTTGGAGCTGAAGGTT 58.950 47.619 0.00 0.00 0.00 3.50
406 5242 2.037772 TCTGACTTGGAGCTGAAGGTTC 59.962 50.000 0.00 0.00 0.00 3.62
407 5243 1.072331 TGACTTGGAGCTGAAGGTTCC 59.928 52.381 0.00 0.00 44.29 3.62
408 5244 0.402121 ACTTGGAGCTGAAGGTTCCC 59.598 55.000 0.00 0.00 43.53 3.97
409 5245 0.695347 CTTGGAGCTGAAGGTTCCCT 59.305 55.000 0.00 0.00 43.53 4.20
410 5246 0.401738 TTGGAGCTGAAGGTTCCCTG 59.598 55.000 0.00 0.00 43.53 4.45
411 5247 1.377856 GGAGCTGAAGGTTCCCTGC 60.378 63.158 0.00 0.00 39.09 4.85
412 5248 1.682257 GAGCTGAAGGTTCCCTGCT 59.318 57.895 0.00 0.00 32.13 4.24
413 5249 0.037447 GAGCTGAAGGTTCCCTGCTT 59.963 55.000 0.00 0.00 32.13 3.91
414 5250 1.279271 GAGCTGAAGGTTCCCTGCTTA 59.721 52.381 0.00 0.00 32.13 3.09
415 5251 1.705186 AGCTGAAGGTTCCCTGCTTAA 59.295 47.619 0.00 0.00 32.13 1.85
416 5252 1.813178 GCTGAAGGTTCCCTGCTTAAC 59.187 52.381 0.00 0.00 32.13 2.01
417 5253 2.553247 GCTGAAGGTTCCCTGCTTAACT 60.553 50.000 0.00 0.00 32.13 2.24
418 5254 3.756117 CTGAAGGTTCCCTGCTTAACTT 58.244 45.455 0.00 0.00 32.13 2.66
419 5255 3.486383 TGAAGGTTCCCTGCTTAACTTG 58.514 45.455 0.00 0.00 32.13 3.16
420 5256 3.137544 TGAAGGTTCCCTGCTTAACTTGA 59.862 43.478 0.00 0.00 32.13 3.02
421 5257 3.141767 AGGTTCCCTGCTTAACTTGAC 57.858 47.619 0.00 0.00 29.57 3.18
422 5258 2.160205 GGTTCCCTGCTTAACTTGACC 58.840 52.381 0.00 0.00 0.00 4.02
423 5259 2.488347 GGTTCCCTGCTTAACTTGACCA 60.488 50.000 0.00 0.00 0.00 4.02
424 5260 3.421844 GTTCCCTGCTTAACTTGACCAT 58.578 45.455 0.00 0.00 0.00 3.55
425 5261 4.566907 GGTTCCCTGCTTAACTTGACCATA 60.567 45.833 0.00 0.00 0.00 2.74
426 5262 4.919774 TCCCTGCTTAACTTGACCATAA 57.080 40.909 0.00 0.00 0.00 1.90
427 5263 4.585879 TCCCTGCTTAACTTGACCATAAC 58.414 43.478 0.00 0.00 0.00 1.89
428 5264 4.288626 TCCCTGCTTAACTTGACCATAACT 59.711 41.667 0.00 0.00 0.00 2.24
429 5265 4.636206 CCCTGCTTAACTTGACCATAACTC 59.364 45.833 0.00 0.00 0.00 3.01
430 5266 4.330074 CCTGCTTAACTTGACCATAACTCG 59.670 45.833 0.00 0.00 0.00 4.18
431 5267 3.682858 TGCTTAACTTGACCATAACTCGC 59.317 43.478 0.00 0.00 0.00 5.03
432 5268 3.682858 GCTTAACTTGACCATAACTCGCA 59.317 43.478 0.00 0.00 0.00 5.10
433 5269 4.201724 GCTTAACTTGACCATAACTCGCAG 60.202 45.833 0.00 0.00 0.00 5.18
434 5270 3.402628 AACTTGACCATAACTCGCAGT 57.597 42.857 0.00 0.00 0.00 4.40
435 5271 4.530710 AACTTGACCATAACTCGCAGTA 57.469 40.909 0.00 0.00 0.00 2.74
436 5272 4.530710 ACTTGACCATAACTCGCAGTAA 57.469 40.909 0.00 0.00 0.00 2.24
437 5273 5.086104 ACTTGACCATAACTCGCAGTAAT 57.914 39.130 0.00 0.00 0.00 1.89
438 5274 5.109903 ACTTGACCATAACTCGCAGTAATC 58.890 41.667 0.00 0.00 0.00 1.75
439 5275 4.729227 TGACCATAACTCGCAGTAATCA 57.271 40.909 0.00 0.00 0.00 2.57
440 5276 5.079689 TGACCATAACTCGCAGTAATCAA 57.920 39.130 0.00 0.00 0.00 2.57
441 5277 4.868171 TGACCATAACTCGCAGTAATCAAC 59.132 41.667 0.00 0.00 0.00 3.18
442 5278 4.189231 ACCATAACTCGCAGTAATCAACC 58.811 43.478 0.00 0.00 0.00 3.77
443 5279 4.188462 CCATAACTCGCAGTAATCAACCA 58.812 43.478 0.00 0.00 0.00 3.67
444 5280 4.271049 CCATAACTCGCAGTAATCAACCAG 59.729 45.833 0.00 0.00 0.00 4.00
445 5281 3.402628 AACTCGCAGTAATCAACCAGT 57.597 42.857 0.00 0.00 0.00 4.00
446 5282 2.960819 ACTCGCAGTAATCAACCAGTC 58.039 47.619 0.00 0.00 0.00 3.51
447 5283 2.299013 ACTCGCAGTAATCAACCAGTCA 59.701 45.455 0.00 0.00 0.00 3.41
448 5284 3.244078 ACTCGCAGTAATCAACCAGTCAA 60.244 43.478 0.00 0.00 0.00 3.18
449 5285 3.734463 TCGCAGTAATCAACCAGTCAAA 58.266 40.909 0.00 0.00 0.00 2.69
450 5286 4.323417 TCGCAGTAATCAACCAGTCAAAT 58.677 39.130 0.00 0.00 0.00 2.32
451 5287 5.483811 TCGCAGTAATCAACCAGTCAAATA 58.516 37.500 0.00 0.00 0.00 1.40
452 5288 5.350365 TCGCAGTAATCAACCAGTCAAATAC 59.650 40.000 0.00 0.00 0.00 1.89
453 5289 5.351465 CGCAGTAATCAACCAGTCAAATACT 59.649 40.000 0.00 0.00 39.81 2.12
517 5510 4.382901 CCTCTCTTCCACTTGGATCAGAAG 60.383 50.000 0.00 0.00 44.98 2.85
575 5568 1.299240 GCTTCGGGCGAGCTACTAC 60.299 63.158 0.00 0.00 0.00 2.73
576 5569 1.359475 CTTCGGGCGAGCTACTACC 59.641 63.158 0.00 0.00 0.00 3.18
588 5581 5.521544 CGAGCTACTACCTACAAATTCCTC 58.478 45.833 0.00 0.00 0.00 3.71
589 5582 5.299782 CGAGCTACTACCTACAAATTCCTCT 59.700 44.000 0.00 0.00 0.00 3.69
592 5585 6.898521 AGCTACTACCTACAAATTCCTCTTCT 59.101 38.462 0.00 0.00 0.00 2.85
659 5652 4.433615 GCGATTGATTCACCTGTCTCTTA 58.566 43.478 0.00 0.00 0.00 2.10
696 5755 3.244735 TGTGCTTTAGGTGAGGTGCATTA 60.245 43.478 0.00 0.00 32.98 1.90
726 5785 9.225436 GAAAGTAAGTGGTACAGTAGTAGTACT 57.775 37.037 8.14 8.14 43.84 2.73
728 5787 9.883142 AAGTAAGTGGTACAGTAGTAGTACTAG 57.117 37.037 10.38 7.56 43.84 2.57
729 5788 9.261035 AGTAAGTGGTACAGTAGTAGTACTAGA 57.739 37.037 10.38 0.00 43.84 2.43
755 5816 7.607991 ACAGAACTGGAGAAATAAATCGTGATT 59.392 33.333 6.76 0.00 34.19 2.57
842 5903 2.104792 TCATTACTAGTGGATGCAGGCC 59.895 50.000 5.39 0.00 0.00 5.19
850 5911 1.227380 GGATGCAGGCCTGTAGTCG 60.227 63.158 32.81 7.97 0.00 4.18
859 5920 2.167900 AGGCCTGTAGTCGGTCATTAAC 59.832 50.000 3.11 0.00 0.00 2.01
865 5926 5.389098 CCTGTAGTCGGTCATTAACAAAACG 60.389 44.000 0.00 0.00 0.00 3.60
896 5957 2.027007 AGCTCACACTCTCGTAGTACCT 60.027 50.000 0.00 0.00 35.76 3.08
937 6023 1.970352 CTCTCCTTCCAGCAGCTCCC 61.970 65.000 0.00 0.00 0.00 4.30
947 6033 4.504916 CAGCTCCCGCGTCCAGAG 62.505 72.222 4.92 6.84 42.32 3.35
967 6064 1.361793 GCCTCGCCACGTATAAAACA 58.638 50.000 0.00 0.00 0.00 2.83
978 6075 1.469703 GTATAAAACACCACGGGCCAC 59.530 52.381 4.39 0.00 0.00 5.01
1236 6369 1.992277 GCTGCTTCCTCCCCTCTCA 60.992 63.158 0.00 0.00 0.00 3.27
1280 6413 3.009115 CCAGCGGAAGGGGAGGAA 61.009 66.667 0.00 0.00 0.00 3.36
1382 6515 4.514577 CGCTCCCGCCTAGTGGTG 62.515 72.222 0.00 0.00 43.21 4.17
1388 6521 0.596082 CCCGCCTAGTGGTGTTTTTG 59.404 55.000 0.00 0.00 42.08 2.44
1417 6550 1.268352 ACGTTGCAACTTGTGTGTTGT 59.732 42.857 26.09 11.08 46.33 3.32
1418 6551 2.484651 ACGTTGCAACTTGTGTGTTGTA 59.515 40.909 26.09 2.22 46.33 2.41
1419 6552 3.097910 CGTTGCAACTTGTGTGTTGTAG 58.902 45.455 26.09 3.12 46.33 2.74
1420 6553 3.181515 CGTTGCAACTTGTGTGTTGTAGA 60.182 43.478 26.09 0.00 46.33 2.59
1421 6554 4.095610 GTTGCAACTTGTGTGTTGTAGAC 58.904 43.478 22.36 0.00 46.33 2.59
1422 6555 3.605634 TGCAACTTGTGTGTTGTAGACT 58.394 40.909 8.78 0.00 46.33 3.24
1423 6556 4.006989 TGCAACTTGTGTGTTGTAGACTT 58.993 39.130 8.78 0.00 46.33 3.01
1424 6557 4.142708 TGCAACTTGTGTGTTGTAGACTTG 60.143 41.667 8.78 0.00 46.33 3.16
1425 6558 4.142687 GCAACTTGTGTGTTGTAGACTTGT 60.143 41.667 8.78 0.00 46.33 3.16
1426 6559 5.064198 GCAACTTGTGTGTTGTAGACTTGTA 59.936 40.000 8.78 0.00 46.33 2.41
1464 6597 2.818121 CGTCATCGTTAAACAACACGG 58.182 47.619 0.00 0.00 37.02 4.94
1466 6599 1.532007 TCATCGTTAAACAACACGGGC 59.468 47.619 0.00 0.00 37.02 6.13
1467 6600 0.513820 ATCGTTAAACAACACGGGCG 59.486 50.000 0.00 0.00 37.02 6.13
1468 6601 0.529337 TCGTTAAACAACACGGGCGA 60.529 50.000 0.00 0.00 37.02 5.54
1469 6602 0.304098 CGTTAAACAACACGGGCGAA 59.696 50.000 0.00 0.00 32.58 4.70
1470 6603 1.069771 CGTTAAACAACACGGGCGAAT 60.070 47.619 0.00 0.00 32.58 3.34
1483 6616 4.387559 CACGGGCGAATCGATTAATTATGA 59.612 41.667 11.38 0.00 0.00 2.15
1484 6617 4.625742 ACGGGCGAATCGATTAATTATGAG 59.374 41.667 11.38 1.22 0.00 2.90
1507 6640 1.197721 CCACGTGGATCACTTTTGCTC 59.802 52.381 31.31 0.00 37.39 4.26
1512 6645 3.003689 CGTGGATCACTTTTGCTCTGTTT 59.996 43.478 0.00 0.00 31.34 2.83
1538 6671 9.548208 TTTTCTTTAAAACAATTCCTTTTTGCG 57.452 25.926 0.00 0.00 29.59 4.85
1539 6672 8.480643 TTCTTTAAAACAATTCCTTTTTGCGA 57.519 26.923 0.00 0.00 0.00 5.10
1540 6673 8.125728 TCTTTAAAACAATTCCTTTTTGCGAG 57.874 30.769 0.00 0.00 0.00 5.03
1541 6674 7.762159 TCTTTAAAACAATTCCTTTTTGCGAGT 59.238 29.630 0.00 0.00 0.00 4.18
1542 6675 8.928270 TTTAAAACAATTCCTTTTTGCGAGTA 57.072 26.923 0.00 0.00 0.00 2.59
1543 6676 8.928270 TTAAAACAATTCCTTTTTGCGAGTAA 57.072 26.923 0.00 0.00 0.00 2.24
1544 6677 7.463469 AAAACAATTCCTTTTTGCGAGTAAG 57.537 32.000 0.00 0.00 0.00 2.34
1545 6678 6.385649 AACAATTCCTTTTTGCGAGTAAGA 57.614 33.333 0.00 0.00 0.00 2.10
1546 6679 6.575162 ACAATTCCTTTTTGCGAGTAAGAT 57.425 33.333 0.00 0.00 0.00 2.40
1547 6680 6.981722 ACAATTCCTTTTTGCGAGTAAGATT 58.018 32.000 0.00 0.00 0.00 2.40
1548 6681 7.084486 ACAATTCCTTTTTGCGAGTAAGATTC 58.916 34.615 0.00 0.00 0.00 2.52
1549 6682 6.817765 ATTCCTTTTTGCGAGTAAGATTCA 57.182 33.333 0.00 0.00 0.00 2.57
1550 6683 5.607119 TCCTTTTTGCGAGTAAGATTCAC 57.393 39.130 0.00 0.00 0.00 3.18
1551 6684 5.305585 TCCTTTTTGCGAGTAAGATTCACT 58.694 37.500 0.00 0.00 0.00 3.41
1552 6685 5.763204 TCCTTTTTGCGAGTAAGATTCACTT 59.237 36.000 0.00 0.00 42.04 3.16
1553 6686 6.073222 TCCTTTTTGCGAGTAAGATTCACTTC 60.073 38.462 0.00 0.00 39.72 3.01
1554 6687 6.073003 CCTTTTTGCGAGTAAGATTCACTTCT 60.073 38.462 0.00 0.00 39.72 2.85
1555 6688 5.845985 TTTGCGAGTAAGATTCACTTCTG 57.154 39.130 0.00 0.00 39.72 3.02
1556 6689 3.254060 TGCGAGTAAGATTCACTTCTGC 58.746 45.455 0.00 0.00 39.72 4.26
1557 6690 3.056536 TGCGAGTAAGATTCACTTCTGCT 60.057 43.478 0.00 0.00 39.72 4.24
1558 6691 3.929610 GCGAGTAAGATTCACTTCTGCTT 59.070 43.478 0.00 0.00 39.72 3.91
1559 6692 4.390297 GCGAGTAAGATTCACTTCTGCTTT 59.610 41.667 0.00 0.00 39.72 3.51
1560 6693 5.577164 GCGAGTAAGATTCACTTCTGCTTTA 59.423 40.000 0.00 0.00 39.72 1.85
1561 6694 6.256757 GCGAGTAAGATTCACTTCTGCTTTAT 59.743 38.462 0.00 0.00 39.72 1.40
1562 6695 7.435488 GCGAGTAAGATTCACTTCTGCTTTATA 59.565 37.037 0.00 0.00 39.72 0.98
1563 6696 9.469807 CGAGTAAGATTCACTTCTGCTTTATAT 57.530 33.333 0.00 0.00 39.72 0.86
1569 6702 9.842775 AGATTCACTTCTGCTTTATATGATTGA 57.157 29.630 0.00 0.00 0.00 2.57
1572 6705 7.923888 TCACTTCTGCTTTATATGATTGAAGC 58.076 34.615 0.00 0.00 43.54 3.86
1573 6706 7.012704 TCACTTCTGCTTTATATGATTGAAGCC 59.987 37.037 4.69 0.00 42.81 4.35
1574 6707 6.830324 ACTTCTGCTTTATATGATTGAAGCCA 59.170 34.615 4.69 0.00 42.81 4.75
1575 6708 7.504911 ACTTCTGCTTTATATGATTGAAGCCAT 59.495 33.333 4.69 0.00 42.81 4.40
1576 6709 7.444629 TCTGCTTTATATGATTGAAGCCATC 57.555 36.000 4.69 0.00 42.81 3.51
1577 6710 6.999871 TCTGCTTTATATGATTGAAGCCATCA 59.000 34.615 4.69 0.00 42.81 3.07
1658 6791 1.925455 CCAAAGGCCTCCTCCCTCA 60.925 63.158 5.23 0.00 30.89 3.86
1676 6809 3.015332 ATCCTCTCTCCCCTGCCGT 62.015 63.158 0.00 0.00 0.00 5.68
1741 6874 3.431725 CTTTTCCCCTCGCGTGGC 61.432 66.667 21.51 0.00 0.00 5.01
1899 7034 1.299562 GCCTAGATCGCGGATCTCGA 61.300 60.000 19.61 11.70 45.03 4.04
2104 7242 1.006043 AGGTCCTCTGTTCAGATCCGA 59.994 52.381 2.89 0.00 0.00 4.55
2253 7391 3.127533 GATGGCGGCGCTCTTGTT 61.128 61.111 32.30 10.01 0.00 2.83
2267 7418 0.168128 CTTGTTTCGGGCGTCATTCC 59.832 55.000 0.00 0.00 0.00 3.01
2268 7419 0.535328 TTGTTTCGGGCGTCATTCCA 60.535 50.000 0.00 0.00 0.00 3.53
2269 7420 0.535328 TGTTTCGGGCGTCATTCCAA 60.535 50.000 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 4818 7.871463 ACTAAACACCTATTGTCTGACTGTAAC 59.129 37.037 9.51 0.00 37.51 2.50
97 4833 7.001674 ACAATCATGAACCAACTAAACACCTA 58.998 34.615 0.00 0.00 0.00 3.08
163 4899 3.064207 CGCTAGCACACCTCTTGTTAAA 58.936 45.455 16.45 0.00 35.67 1.52
173 4909 1.507141 AACAAGCACGCTAGCACACC 61.507 55.000 16.45 0.00 36.85 4.16
183 4919 3.888934 AGCTATCAAACAAACAAGCACG 58.111 40.909 0.00 0.00 32.42 5.34
184 4920 7.692908 TTTTAGCTATCAAACAAACAAGCAC 57.307 32.000 0.00 0.00 32.42 4.40
227 4963 5.769662 TGTTTGACTTTCCAACAGCTCATAT 59.230 36.000 0.00 0.00 0.00 1.78
255 4991 9.579932 AAGGATTCTGGAACATAAATAGATTCC 57.420 33.333 0.00 0.00 40.94 3.01
285 5022 7.881232 TGTTCCCTAGTTATTTGATCTCGTTTT 59.119 33.333 0.00 0.00 0.00 2.43
321 5157 7.322664 TGAATGCCAAGATCTCCAAAATTAAC 58.677 34.615 0.00 0.00 0.00 2.01
340 5176 5.323371 TGTGGCCTTTATTACTTGAATGC 57.677 39.130 3.32 0.00 0.00 3.56
351 5187 6.194235 TCACCAAATCTATTGTGGCCTTTAT 58.806 36.000 3.32 0.00 35.72 1.40
352 5188 5.575157 TCACCAAATCTATTGTGGCCTTTA 58.425 37.500 3.32 0.00 35.72 1.85
353 5189 4.415596 TCACCAAATCTATTGTGGCCTTT 58.584 39.130 3.32 0.00 35.72 3.11
354 5190 4.046286 TCACCAAATCTATTGTGGCCTT 57.954 40.909 3.32 0.00 35.72 4.35
355 5191 3.737559 TCACCAAATCTATTGTGGCCT 57.262 42.857 3.32 0.00 35.72 5.19
356 5192 4.160252 ACATTCACCAAATCTATTGTGGCC 59.840 41.667 0.00 0.00 35.72 5.36
357 5193 5.329035 ACATTCACCAAATCTATTGTGGC 57.671 39.130 0.00 0.00 35.72 5.01
358 5194 5.353956 TCGACATTCACCAAATCTATTGTGG 59.646 40.000 0.00 0.00 38.46 4.17
359 5195 6.421377 TCGACATTCACCAAATCTATTGTG 57.579 37.500 0.00 0.00 0.00 3.33
360 5196 7.630242 AATCGACATTCACCAAATCTATTGT 57.370 32.000 0.00 0.00 0.00 2.71
361 5197 8.400947 AGAAATCGACATTCACCAAATCTATTG 58.599 33.333 13.49 0.00 0.00 1.90
362 5198 8.400947 CAGAAATCGACATTCACCAAATCTATT 58.599 33.333 13.49 0.00 0.00 1.73
363 5199 7.770433 TCAGAAATCGACATTCACCAAATCTAT 59.230 33.333 13.49 0.00 0.00 1.98
364 5200 7.064609 GTCAGAAATCGACATTCACCAAATCTA 59.935 37.037 13.49 0.00 33.43 1.98
365 5201 5.939883 TCAGAAATCGACATTCACCAAATCT 59.060 36.000 13.49 0.00 0.00 2.40
366 5202 6.024049 GTCAGAAATCGACATTCACCAAATC 58.976 40.000 13.49 0.00 33.43 2.17
367 5203 5.707298 AGTCAGAAATCGACATTCACCAAAT 59.293 36.000 13.49 0.00 35.77 2.32
368 5204 5.063204 AGTCAGAAATCGACATTCACCAAA 58.937 37.500 13.49 0.00 35.77 3.28
369 5205 4.641396 AGTCAGAAATCGACATTCACCAA 58.359 39.130 13.49 0.00 35.77 3.67
370 5206 4.271696 AGTCAGAAATCGACATTCACCA 57.728 40.909 13.49 0.00 35.77 4.17
371 5207 4.142816 CCAAGTCAGAAATCGACATTCACC 60.143 45.833 13.49 3.18 35.77 4.02
372 5208 4.690748 TCCAAGTCAGAAATCGACATTCAC 59.309 41.667 13.49 5.67 35.77 3.18
373 5209 4.893608 TCCAAGTCAGAAATCGACATTCA 58.106 39.130 13.49 0.00 35.77 2.57
374 5210 4.201763 GCTCCAAGTCAGAAATCGACATTC 60.202 45.833 4.94 4.94 35.77 2.67
375 5211 3.686726 GCTCCAAGTCAGAAATCGACATT 59.313 43.478 0.00 0.00 35.77 2.71
376 5212 3.055530 AGCTCCAAGTCAGAAATCGACAT 60.056 43.478 0.00 0.00 35.77 3.06
377 5213 2.300152 AGCTCCAAGTCAGAAATCGACA 59.700 45.455 0.00 0.00 35.77 4.35
378 5214 2.670414 CAGCTCCAAGTCAGAAATCGAC 59.330 50.000 0.00 0.00 0.00 4.20
379 5215 2.562738 TCAGCTCCAAGTCAGAAATCGA 59.437 45.455 0.00 0.00 0.00 3.59
380 5216 2.964740 TCAGCTCCAAGTCAGAAATCG 58.035 47.619 0.00 0.00 0.00 3.34
381 5217 3.688673 CCTTCAGCTCCAAGTCAGAAATC 59.311 47.826 0.00 0.00 0.00 2.17
382 5218 3.073650 ACCTTCAGCTCCAAGTCAGAAAT 59.926 43.478 0.00 0.00 0.00 2.17
383 5219 2.439507 ACCTTCAGCTCCAAGTCAGAAA 59.560 45.455 0.00 0.00 0.00 2.52
384 5220 2.050144 ACCTTCAGCTCCAAGTCAGAA 58.950 47.619 0.00 0.00 0.00 3.02
385 5221 1.722034 ACCTTCAGCTCCAAGTCAGA 58.278 50.000 0.00 0.00 0.00 3.27
386 5222 2.421619 GAACCTTCAGCTCCAAGTCAG 58.578 52.381 0.00 0.00 0.00 3.51
387 5223 1.072331 GGAACCTTCAGCTCCAAGTCA 59.928 52.381 0.00 0.00 0.00 3.41
388 5224 1.814793 GGAACCTTCAGCTCCAAGTC 58.185 55.000 0.00 0.00 0.00 3.01
403 5239 2.858745 TGGTCAAGTTAAGCAGGGAAC 58.141 47.619 0.00 0.00 0.00 3.62
404 5240 3.806949 ATGGTCAAGTTAAGCAGGGAA 57.193 42.857 0.00 0.00 0.00 3.97
405 5241 4.288626 AGTTATGGTCAAGTTAAGCAGGGA 59.711 41.667 0.00 0.00 0.00 4.20
406 5242 4.589908 AGTTATGGTCAAGTTAAGCAGGG 58.410 43.478 0.00 0.00 0.00 4.45
407 5243 4.330074 CGAGTTATGGTCAAGTTAAGCAGG 59.670 45.833 0.00 0.00 0.00 4.85
408 5244 4.201724 GCGAGTTATGGTCAAGTTAAGCAG 60.202 45.833 0.00 0.00 0.00 4.24
409 5245 3.682858 GCGAGTTATGGTCAAGTTAAGCA 59.317 43.478 0.00 0.00 0.00 3.91
410 5246 3.682858 TGCGAGTTATGGTCAAGTTAAGC 59.317 43.478 0.00 0.00 0.00 3.09
411 5247 4.929808 ACTGCGAGTTATGGTCAAGTTAAG 59.070 41.667 0.00 0.00 0.00 1.85
412 5248 4.890088 ACTGCGAGTTATGGTCAAGTTAA 58.110 39.130 0.00 0.00 0.00 2.01
413 5249 4.530710 ACTGCGAGTTATGGTCAAGTTA 57.469 40.909 0.00 0.00 0.00 2.24
414 5250 3.402628 ACTGCGAGTTATGGTCAAGTT 57.597 42.857 0.00 0.00 0.00 2.66
415 5251 4.530710 TTACTGCGAGTTATGGTCAAGT 57.469 40.909 0.00 0.00 0.00 3.16
416 5252 5.109210 TGATTACTGCGAGTTATGGTCAAG 58.891 41.667 0.00 0.00 0.00 3.02
417 5253 5.079689 TGATTACTGCGAGTTATGGTCAA 57.920 39.130 0.00 0.00 0.00 3.18
418 5254 4.729227 TGATTACTGCGAGTTATGGTCA 57.271 40.909 0.00 0.00 0.00 4.02
419 5255 4.270325 GGTTGATTACTGCGAGTTATGGTC 59.730 45.833 0.00 0.00 0.00 4.02
420 5256 4.189231 GGTTGATTACTGCGAGTTATGGT 58.811 43.478 0.00 0.00 0.00 3.55
421 5257 4.188462 TGGTTGATTACTGCGAGTTATGG 58.812 43.478 0.00 0.00 0.00 2.74
422 5258 4.870426 ACTGGTTGATTACTGCGAGTTATG 59.130 41.667 0.00 0.00 0.00 1.90
423 5259 5.086104 ACTGGTTGATTACTGCGAGTTAT 57.914 39.130 0.00 0.00 0.00 1.89
424 5260 4.021807 TGACTGGTTGATTACTGCGAGTTA 60.022 41.667 0.00 0.00 0.00 2.24
425 5261 3.244078 TGACTGGTTGATTACTGCGAGTT 60.244 43.478 0.00 0.00 0.00 3.01
426 5262 2.299013 TGACTGGTTGATTACTGCGAGT 59.701 45.455 0.00 0.00 0.00 4.18
427 5263 2.959516 TGACTGGTTGATTACTGCGAG 58.040 47.619 0.00 0.00 0.00 5.03
428 5264 3.394674 TTGACTGGTTGATTACTGCGA 57.605 42.857 0.00 0.00 0.00 5.10
429 5265 4.685169 ATTTGACTGGTTGATTACTGCG 57.315 40.909 0.00 0.00 0.00 5.18
430 5266 6.743575 AGTATTTGACTGGTTGATTACTGC 57.256 37.500 0.00 0.00 36.87 4.40
431 5267 8.883731 CCTTAGTATTTGACTGGTTGATTACTG 58.116 37.037 0.00 0.00 39.39 2.74
432 5268 8.603304 ACCTTAGTATTTGACTGGTTGATTACT 58.397 33.333 0.00 0.00 39.39 2.24
433 5269 8.788325 ACCTTAGTATTTGACTGGTTGATTAC 57.212 34.615 0.00 0.00 39.39 1.89
435 5271 9.449719 CTAACCTTAGTATTTGACTGGTTGATT 57.550 33.333 0.00 0.00 41.97 2.57
436 5272 7.553044 GCTAACCTTAGTATTTGACTGGTTGAT 59.447 37.037 0.00 0.00 41.97 2.57
437 5273 6.877322 GCTAACCTTAGTATTTGACTGGTTGA 59.123 38.462 0.00 0.00 41.97 3.18
438 5274 6.879458 AGCTAACCTTAGTATTTGACTGGTTG 59.121 38.462 0.00 0.00 41.97 3.77
439 5275 7.017319 AGCTAACCTTAGTATTTGACTGGTT 57.983 36.000 0.00 0.00 43.49 3.67
440 5276 6.622427 AGCTAACCTTAGTATTTGACTGGT 57.378 37.500 0.00 0.00 39.39 4.00
441 5277 8.421673 GTTAGCTAACCTTAGTATTTGACTGG 57.578 38.462 23.57 0.00 39.39 4.00
517 5510 2.440065 TGCCCGTGCCATGAATCC 60.440 61.111 0.00 0.00 36.33 3.01
575 5568 7.603024 AGTCGTAAAAGAAGAGGAATTTGTAGG 59.397 37.037 0.00 0.00 0.00 3.18
576 5569 8.535690 AGTCGTAAAAGAAGAGGAATTTGTAG 57.464 34.615 0.00 0.00 0.00 2.74
588 5581 2.735134 CCGGACCAAGTCGTAAAAGAAG 59.265 50.000 0.00 0.00 32.65 2.85
589 5582 2.758009 CCGGACCAAGTCGTAAAAGAA 58.242 47.619 0.00 0.00 32.65 2.52
592 5585 0.603439 GGCCGGACCAAGTCGTAAAA 60.603 55.000 5.05 0.00 38.86 1.52
659 5652 4.546829 AAGCACAGCAAAATGGATTGAT 57.453 36.364 0.00 0.00 31.84 2.57
696 5755 7.778185 ACTACTGTACCACTTACTTTCTGAT 57.222 36.000 0.00 0.00 0.00 2.90
726 5785 7.759886 CACGATTTATTTCTCCAGTTCTGTCTA 59.240 37.037 0.00 0.00 0.00 2.59
727 5786 6.591834 CACGATTTATTTCTCCAGTTCTGTCT 59.408 38.462 0.00 0.00 0.00 3.41
728 5787 6.590292 TCACGATTTATTTCTCCAGTTCTGTC 59.410 38.462 0.00 0.00 0.00 3.51
729 5788 6.464222 TCACGATTTATTTCTCCAGTTCTGT 58.536 36.000 0.00 0.00 0.00 3.41
788 5849 1.675714 GCACCGTCAGATTGGTCATGA 60.676 52.381 0.00 0.00 35.96 3.07
842 5903 5.176223 ACGTTTTGTTAATGACCGACTACAG 59.824 40.000 0.00 0.00 0.00 2.74
850 5911 5.151389 CAAGCCTACGTTTTGTTAATGACC 58.849 41.667 0.00 0.00 0.00 4.02
896 5957 7.125391 AGAGCTTGGGTTTAATAATGGATTGA 58.875 34.615 0.00 0.00 0.00 2.57
955 6049 1.129064 GCCCGTGGTGTTTTATACGTG 59.871 52.381 0.00 0.00 34.96 4.49
988 6085 2.282745 GCCCATCCCTGCTATGCC 60.283 66.667 0.00 0.00 0.00 4.40
992 6089 1.382557 TTCGAGCCCATCCCTGCTA 60.383 57.895 0.00 0.00 38.11 3.49
1083 6183 4.838486 GTGAGGCTCGACCGCTCG 62.838 72.222 10.42 0.00 46.52 5.03
1248 6381 1.445582 CTGGAACGGCGACTGGTAC 60.446 63.158 16.62 0.00 0.00 3.34
1259 6392 3.665675 CTCCCCTTCCGCTGGAACG 62.666 68.421 6.01 3.47 36.71 3.95
1368 6501 0.475044 AAAAACACCACTAGGCGGGA 59.525 50.000 5.54 0.00 39.06 5.14
1369 6502 0.596082 CAAAAACACCACTAGGCGGG 59.404 55.000 5.54 1.13 39.06 6.13
1370 6503 1.600023 TCAAAAACACCACTAGGCGG 58.400 50.000 0.00 0.00 39.06 6.13
1371 6504 2.616842 AGTTCAAAAACACCACTAGGCG 59.383 45.455 0.00 0.00 37.88 5.52
1372 6505 3.795488 GCAGTTCAAAAACACCACTAGGC 60.795 47.826 0.00 0.00 37.88 3.93
1374 6507 3.548014 CGGCAGTTCAAAAACACCACTAG 60.548 47.826 0.00 0.00 37.88 2.57
1376 6509 1.134175 CGGCAGTTCAAAAACACCACT 59.866 47.619 0.00 0.00 37.88 4.00
1379 6512 1.835121 GTCGGCAGTTCAAAAACACC 58.165 50.000 0.00 0.00 37.88 4.16
1382 6515 1.843753 CAACGTCGGCAGTTCAAAAAC 59.156 47.619 0.00 0.00 35.50 2.43
1388 6521 1.368850 GTTGCAACGTCGGCAGTTC 60.369 57.895 14.90 6.63 43.05 3.01
1416 6549 8.291032 CAGCATGTACCTACTATACAAGTCTAC 58.709 40.741 0.00 0.00 39.80 2.59
1417 6550 7.447545 CCAGCATGTACCTACTATACAAGTCTA 59.552 40.741 0.00 0.00 39.80 2.59
1418 6551 6.265649 CCAGCATGTACCTACTATACAAGTCT 59.734 42.308 0.00 0.00 39.80 3.24
1419 6552 6.448006 CCAGCATGTACCTACTATACAAGTC 58.552 44.000 0.00 0.00 39.80 3.01
1420 6553 5.221461 GCCAGCATGTACCTACTATACAAGT 60.221 44.000 0.00 0.00 42.62 3.16
1421 6554 5.230942 GCCAGCATGTACCTACTATACAAG 58.769 45.833 0.00 0.00 36.19 3.16
1422 6555 4.261867 CGCCAGCATGTACCTACTATACAA 60.262 45.833 0.00 0.00 36.19 2.41
1423 6556 3.254903 CGCCAGCATGTACCTACTATACA 59.745 47.826 0.00 0.00 36.98 2.29
1424 6557 3.255149 ACGCCAGCATGTACCTACTATAC 59.745 47.826 0.00 0.00 0.00 1.47
1425 6558 3.493334 ACGCCAGCATGTACCTACTATA 58.507 45.455 0.00 0.00 0.00 1.31
1426 6559 2.296471 GACGCCAGCATGTACCTACTAT 59.704 50.000 0.00 0.00 0.00 2.12
1464 6597 5.316770 GTGCTCATAATTAATCGATTCGCC 58.683 41.667 15.25 0.00 0.00 5.54
1466 6599 6.299604 GTGGTGCTCATAATTAATCGATTCG 58.700 40.000 15.25 0.00 0.00 3.34
1467 6600 6.073765 ACGTGGTGCTCATAATTAATCGATTC 60.074 38.462 15.25 0.00 0.00 2.52
1468 6601 5.758296 ACGTGGTGCTCATAATTAATCGATT 59.242 36.000 16.15 16.15 0.00 3.34
1469 6602 5.177511 CACGTGGTGCTCATAATTAATCGAT 59.822 40.000 7.95 0.00 0.00 3.59
1470 6603 4.506288 CACGTGGTGCTCATAATTAATCGA 59.494 41.667 7.95 0.00 0.00 3.59
1483 6616 0.108585 AAAGTGATCCACGTGGTGCT 59.891 50.000 32.74 21.89 39.64 4.40
1484 6617 0.951558 AAAAGTGATCCACGTGGTGC 59.048 50.000 32.74 24.66 39.64 5.01
1512 6645 9.548208 CGCAAAAAGGAATTGTTTTAAAGAAAA 57.452 25.926 0.00 0.00 32.00 2.29
1515 6648 7.762159 ACTCGCAAAAAGGAATTGTTTTAAAGA 59.238 29.630 0.00 0.00 0.00 2.52
1516 6649 7.905126 ACTCGCAAAAAGGAATTGTTTTAAAG 58.095 30.769 0.00 0.00 0.00 1.85
1519 6652 8.407064 TCTTACTCGCAAAAAGGAATTGTTTTA 58.593 29.630 0.00 0.00 0.00 1.52
1529 6662 5.613358 AGTGAATCTTACTCGCAAAAAGG 57.387 39.130 0.00 0.00 0.00 3.11
1530 6663 6.794158 CAGAAGTGAATCTTACTCGCAAAAAG 59.206 38.462 0.00 0.00 36.40 2.27
1531 6664 6.658831 CAGAAGTGAATCTTACTCGCAAAAA 58.341 36.000 0.00 0.00 36.40 1.94
1532 6665 5.334105 GCAGAAGTGAATCTTACTCGCAAAA 60.334 40.000 0.00 0.00 36.40 2.44
1533 6666 4.152402 GCAGAAGTGAATCTTACTCGCAAA 59.848 41.667 0.00 0.00 36.40 3.68
1534 6667 3.679980 GCAGAAGTGAATCTTACTCGCAA 59.320 43.478 0.00 0.00 36.40 4.85
1535 6668 3.056536 AGCAGAAGTGAATCTTACTCGCA 60.057 43.478 0.00 0.00 36.40 5.10
1536 6669 3.516615 AGCAGAAGTGAATCTTACTCGC 58.483 45.455 0.00 0.00 36.40 5.03
1537 6670 7.763172 ATAAAGCAGAAGTGAATCTTACTCG 57.237 36.000 0.00 0.00 36.40 4.18
1543 6676 9.842775 TCAATCATATAAAGCAGAAGTGAATCT 57.157 29.630 0.00 0.00 0.00 2.40
1546 6679 8.400947 GCTTCAATCATATAAAGCAGAAGTGAA 58.599 33.333 0.00 0.00 42.80 3.18
1547 6680 7.012704 GGCTTCAATCATATAAAGCAGAAGTGA 59.987 37.037 8.07 0.00 44.59 3.41
1548 6681 7.137426 GGCTTCAATCATATAAAGCAGAAGTG 58.863 38.462 8.07 0.00 44.59 3.16
1549 6682 6.830324 TGGCTTCAATCATATAAAGCAGAAGT 59.170 34.615 8.07 0.00 44.59 3.01
1550 6683 7.268199 TGGCTTCAATCATATAAAGCAGAAG 57.732 36.000 8.07 0.00 44.59 2.85
1551 6684 7.503230 TGATGGCTTCAATCATATAAAGCAGAA 59.497 33.333 0.00 0.00 44.59 3.02
1552 6685 6.999871 TGATGGCTTCAATCATATAAAGCAGA 59.000 34.615 0.00 0.00 44.59 4.26
1553 6686 7.210718 TGATGGCTTCAATCATATAAAGCAG 57.789 36.000 0.00 0.00 44.59 4.24
1554 6687 7.585579 TTGATGGCTTCAATCATATAAAGCA 57.414 32.000 11.38 0.00 44.59 3.91
1567 6700 2.097036 CAGGCTTGATTGATGGCTTCA 58.903 47.619 0.00 0.00 32.77 3.02
1568 6701 1.202382 GCAGGCTTGATTGATGGCTTC 60.202 52.381 0.00 0.00 32.77 3.86
1569 6702 0.822164 GCAGGCTTGATTGATGGCTT 59.178 50.000 0.00 0.00 32.77 4.35
1570 6703 1.041447 GGCAGGCTTGATTGATGGCT 61.041 55.000 0.00 0.00 35.20 4.75
1571 6704 1.440476 GGCAGGCTTGATTGATGGC 59.560 57.895 0.00 0.00 0.00 4.40
1572 6705 1.397390 GGGGCAGGCTTGATTGATGG 61.397 60.000 0.00 0.00 0.00 3.51
1573 6706 1.397390 GGGGGCAGGCTTGATTGATG 61.397 60.000 0.00 0.00 0.00 3.07
1574 6707 1.075748 GGGGGCAGGCTTGATTGAT 60.076 57.895 0.00 0.00 0.00 2.57
1575 6708 2.360191 GGGGGCAGGCTTGATTGA 59.640 61.111 0.00 0.00 0.00 2.57
1576 6709 3.142838 CGGGGGCAGGCTTGATTG 61.143 66.667 0.00 0.00 0.00 2.67
1658 6791 2.123077 CGGCAGGGGAGAGAGGAT 60.123 66.667 0.00 0.00 0.00 3.24
1813 6946 2.335011 CTGTCACACTCGCCGTCA 59.665 61.111 0.00 0.00 0.00 4.35
2056 7194 0.931702 CAACTTGTACACGAACCGCA 59.068 50.000 6.33 0.00 0.00 5.69
2104 7242 1.115326 GCCTTGGCCAGGTTTTCACT 61.115 55.000 14.60 0.00 46.07 3.41
2125 7263 2.940890 ATAACAGGGCCATCACCGCG 62.941 60.000 6.18 0.00 0.00 6.46
2137 7275 1.024579 AGGAAACGCCGCATAACAGG 61.025 55.000 0.00 0.00 43.43 4.00
2253 7391 0.391130 CTCTTGGAATGACGCCCGAA 60.391 55.000 0.00 0.00 0.00 4.30
2267 7418 1.401148 CGAGTCCGTGTACACCTCTTG 60.401 57.143 20.11 14.34 0.00 3.02
2268 7419 0.879765 CGAGTCCGTGTACACCTCTT 59.120 55.000 20.11 4.05 0.00 2.85
2269 7420 0.035881 TCGAGTCCGTGTACACCTCT 59.964 55.000 20.11 14.70 37.05 3.69
2356 7509 4.624364 CTCCACTGCACCACGCCA 62.624 66.667 0.00 0.00 41.33 5.69


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

AutoCloner maintained by Alex Coulton.