Multiple sequence alignment - TraesCS2D01G388700

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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 TraesCS2D01G388700 chr2D 100.000 5765 0 0 1 5765 495036371 495042135 0.000000e+00 10647.0
1 TraesCS2D01G388700 chr2A 95.097 4895 117 38 507 5311 638783588 638778727 0.000000e+00 7596.0
2 TraesCS2D01G388700 chr2A 88.163 490 35 10 1 477 638784065 638783586 3.900000e-156 562.0
3 TraesCS2D01G388700 chr2A 86.908 359 27 11 5387 5740 638778728 638778385 9.060000e-103 385.0
4 TraesCS2D01G388700 chr2B 95.183 4007 107 39 862 4854 582644958 582648892 0.000000e+00 6252.0
5 TraesCS2D01G388700 chr2B 89.450 872 43 21 1 840 582643981 582644835 0.000000e+00 1055.0
6 TraesCS2D01G388700 chr2B 93.605 172 11 0 5000 5171 582686384 582686555 2.060000e-64 257.0
7 TraesCS2D01G388700 chr2B 90.761 184 16 1 5543 5725 582687497 582687680 1.600000e-60 244.0
8 TraesCS2D01G388700 chr2B 95.556 45 2 0 5709 5753 582687693 582687737 8.010000e-09 73.1
9 TraesCS2D01G388700 chr4A 78.704 108 17 6 4111 4215 680452884 680452988 3.730000e-07 67.6
10 TraesCS2D01G388700 chr4B 80.952 84 14 2 4133 4215 596775795 596775877 1.340000e-06 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 TraesCS2D01G388700 chr2D 495036371 495042135 5764 False 10647.000000 10647 100.0000 1 5765 1 chr2D.!!$F1 5764
1 TraesCS2D01G388700 chr2A 638778385 638784065 5680 True 2847.666667 7596 90.0560 1 5740 3 chr2A.!!$R1 5739
2 TraesCS2D01G388700 chr2B 582643981 582648892 4911 False 3653.500000 6252 92.3165 1 4854 2 chr2B.!!$F1 4853

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
605 628 0.037882 TCTCTCTCTTGGCGTTGCAG 60.038 55.0 0.00 0.00 0.00 4.41 F
1434 1579 2.860735 CGACGTCTTCCTGGAATCATTC 59.139 50.0 14.70 4.18 0.00 2.67 F
2163 2325 1.296056 TAGCGGCGCAAAAGGAGTTC 61.296 55.0 35.02 0.00 0.00 3.01 F
3414 3599 0.921896 ACCCATTAGCACTGGCAGAT 59.078 50.0 23.66 9.14 44.61 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1923 2072 0.950555 TGTGTTGCTCGTCTCCATGC 60.951 55.0 0.00 0.00 0.00 4.06 R
3414 3599 0.249699 AATTGTCGGTGCTCACGTCA 60.250 50.0 0.00 0.00 0.00 4.35 R
3780 3971 0.819259 GCACCCAGTTGCAGAAGACA 60.819 55.0 0.00 0.00 42.49 3.41 R
5252 5452 0.037882 TCTCGCTCTTGCAAGTCCAG 60.038 55.0 25.19 16.54 39.64 3.86 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
115 133 3.422796 GCGATTCCCCATCTCTACTCTA 58.577 50.000 0.00 0.00 0.00 2.43
116 134 3.191791 GCGATTCCCCATCTCTACTCTAC 59.808 52.174 0.00 0.00 0.00 2.59
117 135 4.658063 CGATTCCCCATCTCTACTCTACT 58.342 47.826 0.00 0.00 0.00 2.57
118 136 4.698304 CGATTCCCCATCTCTACTCTACTC 59.302 50.000 0.00 0.00 0.00 2.59
119 137 5.636123 GATTCCCCATCTCTACTCTACTCA 58.364 45.833 0.00 0.00 0.00 3.41
123 141 4.141287 CCCATCTCTACTCTACTCACCAG 58.859 52.174 0.00 0.00 0.00 4.00
159 177 3.712907 GCCCTAGGAACGGTGGCA 61.713 66.667 11.48 0.00 41.76 4.92
233 255 5.643348 TGTCTTCCATTACAGCTGTGTATTG 59.357 40.000 29.57 18.66 38.98 1.90
270 292 7.066525 GGATTCATCCCATACGAACTGTTTTAA 59.933 37.037 0.00 0.00 41.20 1.52
312 334 7.628235 TCGATCTGAACTGTTACTATTAGACG 58.372 38.462 0.00 0.00 0.00 4.18
320 342 7.096884 ACTGTTACTATTAGACGAATGCTCA 57.903 36.000 0.00 0.00 0.00 4.26
328 350 0.368227 GACGAATGCTCACTTGCGAG 59.632 55.000 0.00 0.00 36.02 5.03
344 366 1.890894 GAGTTACAGCGGCCTCTGA 59.109 57.895 29.09 10.05 37.51 3.27
348 370 1.123077 TTACAGCGGCCTCTGATGAT 58.877 50.000 29.09 9.24 37.51 2.45
349 371 1.123077 TACAGCGGCCTCTGATGATT 58.877 50.000 29.09 8.85 37.51 2.57
376 398 5.063180 TGCAGCAATCAATTAGGAACTTG 57.937 39.130 0.00 0.00 41.75 3.16
400 422 1.098050 ATTGGCTCCGAGTCATTTGC 58.902 50.000 2.92 0.00 25.43 3.68
407 429 2.094659 CGAGTCATTTGCGCCTCGT 61.095 57.895 19.15 0.00 41.30 4.18
485 507 4.985538 ACAAACAGAGTGGTACATTCCAT 58.014 39.130 0.00 0.00 46.79 3.41
491 513 3.846588 AGAGTGGTACATTCCATGGTTCT 59.153 43.478 12.58 0.00 46.79 3.01
523 545 3.935828 GTCAAGGTCTAAAGGACATGAGC 59.064 47.826 0.00 0.00 46.16 4.26
568 590 3.730662 CGGTTCTTGTTGTCACACAAAGG 60.731 47.826 0.00 0.00 40.15 3.11
604 627 0.392706 TTCTCTCTCTTGGCGTTGCA 59.607 50.000 0.00 0.00 0.00 4.08
605 628 0.037882 TCTCTCTCTTGGCGTTGCAG 60.038 55.000 0.00 0.00 0.00 4.41
678 701 7.361885 CCAGCATAGATGGATTAATTCTTCAGC 60.362 40.741 11.23 11.05 42.34 4.26
720 753 8.754991 TTCTTCAGTTAGAACCCAAACATTTA 57.245 30.769 0.00 0.00 31.61 1.40
816 849 4.295141 TGTTTGGGGATAAGTTCGTCAT 57.705 40.909 0.00 0.00 0.00 3.06
1013 1158 3.328382 TTTCTTGATGTACCAGGTCCG 57.672 47.619 0.00 0.00 0.00 4.79
1434 1579 2.860735 CGACGTCTTCCTGGAATCATTC 59.139 50.000 14.70 4.18 0.00 2.67
1711 1857 9.656040 AAACGTACATATAACAATAACACTCCA 57.344 29.630 0.00 0.00 0.00 3.86
1712 1858 9.656040 AACGTACATATAACAATAACACTCCAA 57.344 29.630 0.00 0.00 0.00 3.53
1714 1860 8.545420 CGTACATATAACAATAACACTCCAACC 58.455 37.037 0.00 0.00 0.00 3.77
1883 2032 6.144080 ACAGTCTTTAAGTTGTTCGATTCTCG 59.856 38.462 0.00 0.00 42.10 4.04
1923 2072 8.422973 TCTTGAAACATGAATCCAAAAGTTTG 57.577 30.769 0.00 0.00 37.90 2.93
2163 2325 1.296056 TAGCGGCGCAAAAGGAGTTC 61.296 55.000 35.02 0.00 0.00 3.01
2192 2354 4.424061 TCAAGAAGACATCAAAATGGCG 57.576 40.909 0.00 0.00 46.37 5.69
2725 2887 3.181475 GGAGCTCGGTGAGAATATGTTCA 60.181 47.826 7.83 0.00 36.79 3.18
3406 3591 3.063452 CGACACAATGTACCCATTAGCAC 59.937 47.826 0.00 0.00 39.28 4.40
3414 3599 0.921896 ACCCATTAGCACTGGCAGAT 59.078 50.000 23.66 9.14 44.61 2.90
3579 3764 7.253917 GGCATTATCGATACGATTCAGAAGATG 60.254 40.741 4.16 3.09 44.59 2.90
3737 3922 9.121517 GACACATAGTTGTCAATCAAATTTCAG 57.878 33.333 0.00 0.00 44.62 3.02
3777 3968 3.198872 GGGTTGCTCTGTATAACTCTGC 58.801 50.000 0.00 0.00 0.00 4.26
3780 3971 4.878397 GGTTGCTCTGTATAACTCTGCATT 59.122 41.667 0.00 0.00 0.00 3.56
4861 5056 3.982516 ACAGTATACAGAGGAAGGAGCA 58.017 45.455 5.50 0.00 0.00 4.26
4864 5059 3.823873 AGTATACAGAGGAAGGAGCATCG 59.176 47.826 5.50 0.00 34.37 3.84
4964 5162 0.620556 ATTTCAGGCCACGTCATCCT 59.379 50.000 5.01 0.00 0.00 3.24
4997 5195 2.159071 TCGGTCGTCTCCAAAAACAGAA 60.159 45.455 0.00 0.00 0.00 3.02
5068 5268 3.032609 CGCCATCTCCGTCGATGC 61.033 66.667 0.00 2.28 39.51 3.91
5073 5273 1.416373 CATCTCCGTCGATGCATCAG 58.584 55.000 25.70 17.71 34.92 2.90
5075 5275 1.953138 CTCCGTCGATGCATCAGCC 60.953 63.158 25.70 11.62 41.13 4.85
5076 5276 2.107750 CCGTCGATGCATCAGCCT 59.892 61.111 25.70 0.00 41.13 4.58
5077 5277 1.953138 CCGTCGATGCATCAGCCTC 60.953 63.158 25.70 9.81 41.13 4.70
5081 5281 2.976903 GATGCATCAGCCTCGCCC 60.977 66.667 21.92 0.00 41.13 6.13
5082 5282 4.923942 ATGCATCAGCCTCGCCCG 62.924 66.667 0.00 0.00 41.13 6.13
5085 5285 2.892425 CATCAGCCTCGCCCGTTC 60.892 66.667 0.00 0.00 0.00 3.95
5086 5286 4.514577 ATCAGCCTCGCCCGTTCG 62.515 66.667 0.00 0.00 0.00 3.95
5122 5322 0.179171 CGACGAGATTGTAGCACGGT 60.179 55.000 0.00 0.00 0.00 4.83
5124 5324 1.132643 GACGAGATTGTAGCACGGTCT 59.867 52.381 0.00 0.00 0.00 3.85
5135 5335 1.450211 CACGGTCTCCAGTGGGTTT 59.550 57.895 9.92 0.00 34.93 3.27
5139 5339 1.831736 CGGTCTCCAGTGGGTTTCTAT 59.168 52.381 9.92 0.00 34.93 1.98
5143 5343 4.383226 GGTCTCCAGTGGGTTTCTATCTTC 60.383 50.000 9.92 0.00 34.93 2.87
5145 5345 2.093658 TCCAGTGGGTTTCTATCTTCGC 60.094 50.000 9.92 0.00 34.93 4.70
5152 5352 2.945668 GGTTTCTATCTTCGCCTGCAAT 59.054 45.455 0.00 0.00 0.00 3.56
5189 5389 1.544246 ACGTTGGATCGTGTGAGATCA 59.456 47.619 8.89 0.00 46.55 2.92
5201 5401 2.032799 TGTGAGATCAAACGGTTTGCAC 59.967 45.455 24.97 24.08 40.43 4.57
5221 5421 4.072088 GACCAGCGCACCGTTTCG 62.072 66.667 11.47 0.00 0.00 3.46
5252 5452 4.393990 ACCGAAGTAAATCGTTTCCCAATC 59.606 41.667 0.00 0.00 41.16 2.67
5278 5478 0.605083 TGCAAGAGCGAGATCTGTGT 59.395 50.000 0.00 0.00 46.23 3.72
5293 5493 4.737855 TCTGTGTGGTTAGCTATCTTCC 57.262 45.455 0.00 0.00 0.00 3.46
5319 5519 4.681074 AAAAATCATCCGTGGTTTTGGT 57.319 36.364 0.66 0.00 45.45 3.67
5320 5520 5.793030 AAAAATCATCCGTGGTTTTGGTA 57.207 34.783 0.66 0.00 45.45 3.25
5321 5521 5.993748 AAAATCATCCGTGGTTTTGGTAT 57.006 34.783 0.00 0.00 44.71 2.73
5322 5522 5.993748 AAATCATCCGTGGTTTTGGTATT 57.006 34.783 0.00 0.00 35.12 1.89
5323 5523 5.993748 AATCATCCGTGGTTTTGGTATTT 57.006 34.783 0.00 0.00 0.00 1.40
5324 5524 5.993748 ATCATCCGTGGTTTTGGTATTTT 57.006 34.783 0.00 0.00 0.00 1.82
5325 5525 5.793030 TCATCCGTGGTTTTGGTATTTTT 57.207 34.783 0.00 0.00 0.00 1.94
5326 5526 5.533482 TCATCCGTGGTTTTGGTATTTTTG 58.467 37.500 0.00 0.00 0.00 2.44
5327 5527 3.718815 TCCGTGGTTTTGGTATTTTTGC 58.281 40.909 0.00 0.00 0.00 3.68
5328 5528 3.385111 TCCGTGGTTTTGGTATTTTTGCT 59.615 39.130 0.00 0.00 0.00 3.91
5329 5529 4.123506 CCGTGGTTTTGGTATTTTTGCTT 58.876 39.130 0.00 0.00 0.00 3.91
5330 5530 4.572795 CCGTGGTTTTGGTATTTTTGCTTT 59.427 37.500 0.00 0.00 0.00 3.51
5331 5531 5.065346 CCGTGGTTTTGGTATTTTTGCTTTT 59.935 36.000 0.00 0.00 0.00 2.27
5332 5532 6.403746 CCGTGGTTTTGGTATTTTTGCTTTTT 60.404 34.615 0.00 0.00 0.00 1.94
5333 5533 7.201617 CCGTGGTTTTGGTATTTTTGCTTTTTA 60.202 33.333 0.00 0.00 0.00 1.52
5334 5534 8.338986 CGTGGTTTTGGTATTTTTGCTTTTTAT 58.661 29.630 0.00 0.00 0.00 1.40
5340 5540 9.508567 TTTGGTATTTTTGCTTTTTATTTGTGC 57.491 25.926 0.00 0.00 0.00 4.57
5341 5541 7.348201 TGGTATTTTTGCTTTTTATTTGTGCG 58.652 30.769 0.00 0.00 0.00 5.34
5342 5542 6.794636 GGTATTTTTGCTTTTTATTTGTGCGG 59.205 34.615 0.00 0.00 0.00 5.69
5343 5543 6.610741 ATTTTTGCTTTTTATTTGTGCGGA 57.389 29.167 0.00 0.00 0.00 5.54
5344 5544 6.422776 TTTTTGCTTTTTATTTGTGCGGAA 57.577 29.167 0.00 0.00 0.00 4.30
5345 5545 5.396750 TTTGCTTTTTATTTGTGCGGAAC 57.603 34.783 0.00 0.00 0.00 3.62
5346 5546 4.046938 TGCTTTTTATTTGTGCGGAACA 57.953 36.364 0.00 0.00 36.85 3.18
5354 5554 2.335316 TTGTGCGGAACAAGTTAGGT 57.665 45.000 0.00 0.00 43.96 3.08
5355 5555 1.588674 TGTGCGGAACAAGTTAGGTG 58.411 50.000 0.00 0.00 35.24 4.00
5356 5556 1.134340 TGTGCGGAACAAGTTAGGTGT 60.134 47.619 0.00 0.00 35.24 4.16
5357 5557 1.944709 GTGCGGAACAAGTTAGGTGTT 59.055 47.619 0.00 0.00 41.84 3.32
5358 5558 2.356695 GTGCGGAACAAGTTAGGTGTTT 59.643 45.455 0.00 0.00 39.29 2.83
5359 5559 3.018149 TGCGGAACAAGTTAGGTGTTTT 58.982 40.909 0.00 0.00 39.29 2.43
5360 5560 3.444388 TGCGGAACAAGTTAGGTGTTTTT 59.556 39.130 0.00 0.00 39.29 1.94
5361 5561 4.639310 TGCGGAACAAGTTAGGTGTTTTTA 59.361 37.500 0.00 0.00 39.29 1.52
5362 5562 4.971830 GCGGAACAAGTTAGGTGTTTTTAC 59.028 41.667 0.00 0.00 39.29 2.01
5363 5563 5.199726 CGGAACAAGTTAGGTGTTTTTACG 58.800 41.667 0.00 0.00 39.29 3.18
5364 5564 5.220643 CGGAACAAGTTAGGTGTTTTTACGT 60.221 40.000 0.00 0.00 39.29 3.57
5365 5565 6.194463 GGAACAAGTTAGGTGTTTTTACGTC 58.806 40.000 0.00 0.00 39.29 4.34
5366 5566 6.037500 GGAACAAGTTAGGTGTTTTTACGTCT 59.962 38.462 0.00 0.00 39.29 4.18
5367 5567 6.990341 ACAAGTTAGGTGTTTTTACGTCTT 57.010 33.333 0.00 0.00 0.00 3.01
5368 5568 6.778108 ACAAGTTAGGTGTTTTTACGTCTTG 58.222 36.000 0.00 0.00 35.96 3.02
5369 5569 5.413969 AGTTAGGTGTTTTTACGTCTTGC 57.586 39.130 0.00 0.00 0.00 4.01
5371 5571 2.553086 AGGTGTTTTTACGTCTTGCGA 58.447 42.857 0.00 0.00 44.77 5.10
5372 5572 2.542595 AGGTGTTTTTACGTCTTGCGAG 59.457 45.455 0.00 0.00 44.77 5.03
5373 5573 2.349155 GGTGTTTTTACGTCTTGCGAGG 60.349 50.000 0.00 0.00 44.77 4.63
5374 5574 2.286025 GTGTTTTTACGTCTTGCGAGGT 59.714 45.455 0.00 0.00 44.77 3.85
5375 5575 3.490526 GTGTTTTTACGTCTTGCGAGGTA 59.509 43.478 0.00 0.00 44.77 3.08
5376 5576 4.025813 GTGTTTTTACGTCTTGCGAGGTAA 60.026 41.667 0.00 2.18 44.30 2.85
5377 5577 4.751098 TGTTTTTACGTCTTGCGAGGTAAT 59.249 37.500 0.00 0.00 44.91 1.89
5378 5578 5.236911 TGTTTTTACGTCTTGCGAGGTAATT 59.763 36.000 0.00 0.00 44.91 1.40
5379 5579 5.927954 TTTTACGTCTTGCGAGGTAATTT 57.072 34.783 0.00 0.00 44.91 1.82
5380 5580 7.042187 TGTTTTTACGTCTTGCGAGGTAATTTA 60.042 33.333 0.00 0.00 44.91 1.40
5381 5581 6.636666 TTTACGTCTTGCGAGGTAATTTAG 57.363 37.500 0.00 0.00 44.91 1.85
5382 5582 3.518590 ACGTCTTGCGAGGTAATTTAGG 58.481 45.455 0.00 0.00 44.77 2.69
5383 5583 3.056322 ACGTCTTGCGAGGTAATTTAGGT 60.056 43.478 0.00 0.00 44.77 3.08
5384 5584 3.306166 CGTCTTGCGAGGTAATTTAGGTG 59.694 47.826 0.00 0.00 44.77 4.00
5385 5585 4.251268 GTCTTGCGAGGTAATTTAGGTGT 58.749 43.478 0.00 0.00 0.00 4.16
5415 5615 4.883585 TGCATCATTCTGATCCAAAGTACC 59.116 41.667 0.00 0.00 34.28 3.34
5418 5618 4.111577 TCATTCTGATCCAAAGTACCCCT 58.888 43.478 0.00 0.00 0.00 4.79
5419 5619 4.164221 TCATTCTGATCCAAAGTACCCCTC 59.836 45.833 0.00 0.00 0.00 4.30
5420 5620 2.108168 TCTGATCCAAAGTACCCCTCG 58.892 52.381 0.00 0.00 0.00 4.63
5421 5621 1.139058 CTGATCCAAAGTACCCCTCGG 59.861 57.143 0.00 0.00 0.00 4.63
5423 5623 2.292389 TGATCCAAAGTACCCCTCGGTA 60.292 50.000 0.00 0.00 42.18 4.02
5432 5632 2.610438 ACCCCTCGGTACTTTAGTGA 57.390 50.000 0.00 0.00 42.18 3.41
5433 5633 3.111741 ACCCCTCGGTACTTTAGTGAT 57.888 47.619 0.00 0.00 42.18 3.06
5434 5634 3.029570 ACCCCTCGGTACTTTAGTGATC 58.970 50.000 0.00 0.00 42.18 2.92
5435 5635 3.297736 CCCCTCGGTACTTTAGTGATCT 58.702 50.000 0.00 0.00 0.00 2.75
5437 5637 4.891756 CCCCTCGGTACTTTAGTGATCTAA 59.108 45.833 0.00 0.00 34.76 2.10
5438 5638 5.361857 CCCCTCGGTACTTTAGTGATCTAAA 59.638 44.000 0.00 0.00 41.87 1.85
5439 5639 6.271566 CCCTCGGTACTTTAGTGATCTAAAC 58.728 44.000 0.00 0.00 40.05 2.01
5440 5640 6.271566 CCTCGGTACTTTAGTGATCTAAACC 58.728 44.000 0.00 0.00 40.05 3.27
5441 5641 6.212888 TCGGTACTTTAGTGATCTAAACCC 57.787 41.667 0.00 0.00 40.05 4.11
5443 5643 6.438425 TCGGTACTTTAGTGATCTAAACCCTT 59.562 38.462 0.00 0.00 40.05 3.95
5444 5644 7.038799 TCGGTACTTTAGTGATCTAAACCCTTT 60.039 37.037 0.00 0.00 40.05 3.11
5445 5645 7.605309 CGGTACTTTAGTGATCTAAACCCTTTT 59.395 37.037 0.00 0.00 40.05 2.27
5446 5646 9.948964 GGTACTTTAGTGATCTAAACCCTTTTA 57.051 33.333 0.00 0.00 40.05 1.52
5474 5674 8.788325 ATAGTGGTCTAAATTTCTAAACGCTT 57.212 30.769 0.00 0.00 0.00 4.68
5546 5747 6.494835 AGTCTCAAAATTTAAGGGTTGCTCAT 59.505 34.615 0.00 0.00 0.00 2.90
5553 5754 8.422577 AAATTTAAGGGTTGCTCATTTAGTCT 57.577 30.769 0.00 0.00 0.00 3.24
5609 5810 5.072741 TGTAAGCTGAAGCCATTTTCTCTT 58.927 37.500 0.00 0.00 43.38 2.85
5612 5813 5.541953 AGCTGAAGCCATTTTCTCTTTTT 57.458 34.783 0.00 0.00 43.38 1.94
5630 5831 2.212327 TTTTTCTTTTGCGGGGCCA 58.788 47.368 4.39 0.00 0.00 5.36
5640 5841 1.523938 GCGGGGCCATTGACTCTAC 60.524 63.158 4.39 0.00 0.00 2.59
5649 5850 4.345257 GGCCATTGACTCTACCTCTGAATA 59.655 45.833 0.00 0.00 0.00 1.75
5656 5857 4.794334 ACTCTACCTCTGAATACGACCAT 58.206 43.478 0.00 0.00 0.00 3.55
5703 5905 3.756933 TTAGGCAGACACGGTTTAAGT 57.243 42.857 0.00 0.00 0.00 2.24
5711 5913 5.636543 GCAGACACGGTTTAAGTATGTAACT 59.363 40.000 0.00 0.00 41.49 2.24
5720 5922 8.633408 CGGTTTAAGTATGTAACTATCATACGC 58.367 37.037 9.40 0.00 46.82 4.42
5724 5926 7.439157 AAGTATGTAACTATCATACGCGGTA 57.561 36.000 12.47 0.25 46.82 4.02
5740 5942 4.279169 ACGCGGTAATGCTAACCTAGAATA 59.721 41.667 12.47 0.00 34.66 1.75
5741 5943 5.221303 ACGCGGTAATGCTAACCTAGAATAA 60.221 40.000 12.47 0.00 34.66 1.40
5742 5944 5.118203 CGCGGTAATGCTAACCTAGAATAAC 59.882 44.000 0.00 0.00 34.66 1.89
5743 5945 5.987347 GCGGTAATGCTAACCTAGAATAACA 59.013 40.000 0.00 0.00 34.66 2.41
5744 5946 6.145696 GCGGTAATGCTAACCTAGAATAACAG 59.854 42.308 0.00 0.00 34.66 3.16
5745 5947 7.208080 CGGTAATGCTAACCTAGAATAACAGT 58.792 38.462 0.00 0.00 34.66 3.55
5746 5948 8.355169 CGGTAATGCTAACCTAGAATAACAGTA 58.645 37.037 0.00 0.00 34.66 2.74
5747 5949 9.694137 GGTAATGCTAACCTAGAATAACAGTAG 57.306 37.037 0.00 0.00 33.97 2.57
5748 5950 9.194271 GTAATGCTAACCTAGAATAACAGTAGC 57.806 37.037 0.00 0.00 0.00 3.58
5749 5951 7.604657 ATGCTAACCTAGAATAACAGTAGCT 57.395 36.000 0.00 0.00 0.00 3.32
5750 5952 7.419711 TGCTAACCTAGAATAACAGTAGCTT 57.580 36.000 0.00 0.00 0.00 3.74
5751 5953 7.848128 TGCTAACCTAGAATAACAGTAGCTTT 58.152 34.615 0.00 0.00 0.00 3.51
5752 5954 8.974238 TGCTAACCTAGAATAACAGTAGCTTTA 58.026 33.333 0.00 0.00 0.00 1.85
5753 5955 9.813446 GCTAACCTAGAATAACAGTAGCTTTAA 57.187 33.333 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 52 2.296073 TTTGGTGCCGGGTTTCTATT 57.704 45.000 2.18 0.00 0.00 1.73
51 53 2.296073 TTTTGGTGCCGGGTTTCTAT 57.704 45.000 2.18 0.00 0.00 1.98
115 133 1.367840 GCCGTCTTGACTGGTGAGT 59.632 57.895 11.18 0.00 33.98 3.41
116 134 1.374758 GGCCGTCTTGACTGGTGAG 60.375 63.158 0.00 0.00 0.00 3.51
117 135 1.691195 TTGGCCGTCTTGACTGGTGA 61.691 55.000 0.00 0.00 0.00 4.02
118 136 1.227823 TTGGCCGTCTTGACTGGTG 60.228 57.895 0.00 0.00 0.00 4.17
119 137 1.227853 GTTGGCCGTCTTGACTGGT 60.228 57.895 0.00 0.00 0.00 4.00
123 141 1.566018 CTTCCGTTGGCCGTCTTGAC 61.566 60.000 0.00 0.00 33.66 3.18
233 255 1.680207 GGATGAATCCAAAGGAGCAGC 59.320 52.381 4.38 0.00 46.38 5.25
270 292 9.605275 TTCAGATCGATTATGAGAACAGAAAAT 57.395 29.630 12.35 0.00 31.02 1.82
287 309 7.493645 TCGTCTAATAGTAACAGTTCAGATCGA 59.506 37.037 0.00 0.00 0.00 3.59
312 334 2.736721 TGTAACTCGCAAGTGAGCATTC 59.263 45.455 10.35 0.00 39.68 2.67
320 342 2.027625 GCCGCTGTAACTCGCAAGT 61.028 57.895 0.00 0.00 37.32 3.16
328 350 0.175760 TCATCAGAGGCCGCTGTAAC 59.824 55.000 32.08 4.06 37.20 2.50
376 398 1.048601 TGACTCGGAGCCAATATCCC 58.951 55.000 4.58 0.00 32.86 3.85
400 422 4.827087 AGGCTGCATCACGAGGCG 62.827 66.667 0.50 0.00 41.64 5.52
407 429 0.622136 ATTCCTGTGAGGCTGCATCA 59.378 50.000 13.56 13.56 34.61 3.07
415 437 3.743521 TCACACAAAGATTCCTGTGAGG 58.256 45.455 18.50 12.00 44.68 3.86
457 479 5.864418 TGTACCACTCTGTTTGTTACTCT 57.136 39.130 0.00 0.00 0.00 3.24
485 507 3.181491 CCTTGACGCAAAAGAAAGAACCA 60.181 43.478 0.00 0.00 0.00 3.67
491 513 5.220970 CCTTTAGACCTTGACGCAAAAGAAA 60.221 40.000 0.00 0.00 0.00 2.52
523 545 2.613977 CCCAGATAAATCGGCTAGGCAG 60.614 54.545 17.45 9.28 0.00 4.85
574 596 3.574354 AGAGAGAGAAAATGCATCCCC 57.426 47.619 0.00 0.00 0.00 4.81
575 597 3.631227 CCAAGAGAGAGAAAATGCATCCC 59.369 47.826 0.00 0.00 0.00 3.85
576 598 3.066481 GCCAAGAGAGAGAAAATGCATCC 59.934 47.826 0.00 0.00 0.00 3.51
578 600 2.681848 CGCCAAGAGAGAGAAAATGCAT 59.318 45.455 0.00 0.00 0.00 3.96
579 601 2.079158 CGCCAAGAGAGAGAAAATGCA 58.921 47.619 0.00 0.00 0.00 3.96
580 602 2.079925 ACGCCAAGAGAGAGAAAATGC 58.920 47.619 0.00 0.00 0.00 3.56
581 603 3.669023 GCAACGCCAAGAGAGAGAAAATG 60.669 47.826 0.00 0.00 0.00 2.32
582 604 2.485814 GCAACGCCAAGAGAGAGAAAAT 59.514 45.455 0.00 0.00 0.00 1.82
604 627 5.778750 TCAAGAAAGGCTAGTAGGTAACACT 59.221 40.000 0.00 0.00 41.41 3.55
605 628 6.034161 TCAAGAAAGGCTAGTAGGTAACAC 57.966 41.667 0.00 0.00 41.41 3.32
1013 1158 2.500098 GGAGGGAATTAAAAAGGGCCAC 59.500 50.000 6.18 0.00 0.00 5.01
1434 1579 3.952323 TCTTGTAAGATCCTACGGTGAGG 59.048 47.826 0.00 0.00 38.03 3.86
1696 1842 9.521841 TCATTTATGGTTGGAGTGTTATTGTTA 57.478 29.630 0.00 0.00 0.00 2.41
1711 1857 7.414222 ACTGAATTCAGCATCATTTATGGTT 57.586 32.000 30.95 7.40 43.83 3.67
1757 1906 6.238456 GCAAAACTTCCTTCAAATTTTCCCTG 60.238 38.462 0.00 0.00 0.00 4.45
1923 2072 0.950555 TGTGTTGCTCGTCTCCATGC 60.951 55.000 0.00 0.00 0.00 4.06
2163 2325 3.565516 TGATGTCTTCTTGAACGAGTCG 58.434 45.455 11.85 11.85 0.00 4.18
2192 2354 4.471904 TGGAGTGTATGTGGTCATCTTC 57.528 45.455 0.00 0.00 35.70 2.87
2725 2887 6.484288 TTCAACATCTGAATAATGGGACACT 58.516 36.000 0.00 0.00 39.56 3.55
2911 3096 9.191479 TGGGAGACTTTAACTTACAAATCAAAA 57.809 29.630 0.00 0.00 0.00 2.44
3406 3591 1.079612 TGCTCACGTCATCTGCCAG 60.080 57.895 0.00 0.00 0.00 4.85
3414 3599 0.249699 AATTGTCGGTGCTCACGTCA 60.250 50.000 0.00 0.00 0.00 4.35
3579 3764 3.386237 ACGACTCCAGCAGCTCCC 61.386 66.667 0.00 0.00 0.00 4.30
3734 3919 6.042781 ACCCAAACATTCAGAGTTACTACTGA 59.957 38.462 9.35 9.35 40.66 3.41
3735 3920 6.231211 ACCCAAACATTCAGAGTTACTACTG 58.769 40.000 5.78 5.78 33.84 2.74
3736 3921 6.435292 ACCCAAACATTCAGAGTTACTACT 57.565 37.500 0.00 0.00 37.31 2.57
3737 3922 6.567891 GCAACCCAAACATTCAGAGTTACTAC 60.568 42.308 0.00 0.00 0.00 2.73
3777 3968 2.030540 CACCCAGTTGCAGAAGACAATG 60.031 50.000 0.00 0.00 0.00 2.82
3780 3971 0.819259 GCACCCAGTTGCAGAAGACA 60.819 55.000 0.00 0.00 42.49 3.41
4089 4280 2.202932 GACATGCTCGTGCCGGAT 60.203 61.111 5.05 0.00 38.71 4.18
4842 5037 3.823873 CGATGCTCCTTCCTCTGTATACT 59.176 47.826 4.17 0.00 0.00 2.12
4854 5049 1.747355 CCAGATTTTGCGATGCTCCTT 59.253 47.619 0.00 0.00 0.00 3.36
4861 5056 1.369625 GTCCGTCCAGATTTTGCGAT 58.630 50.000 0.00 0.00 0.00 4.58
4864 5059 1.134694 GCGTCCGTCCAGATTTTGC 59.865 57.895 0.00 0.00 0.00 3.68
4922 5120 3.672767 AACGGTTACAGAAGGACGAAT 57.327 42.857 0.00 0.00 0.00 3.34
4964 5162 0.688487 ACGACCGATGGGGAAGAAAA 59.312 50.000 0.00 0.00 39.97 2.29
4997 5195 1.076513 ACGGGGGCAGTTATTTTTCCT 59.923 47.619 0.00 0.00 0.00 3.36
5048 5248 1.824329 ATCGACGGAGATGGCGAGT 60.824 57.895 0.00 0.00 36.12 4.18
5068 5268 2.892425 GAACGGGCGAGGCTGATG 60.892 66.667 12.58 0.00 0.00 3.07
5090 5290 4.813526 CGTCGACGACAGCGAGGG 62.814 72.222 33.35 5.66 43.02 4.30
5091 5291 3.703939 CTCGTCGACGACAGCGAGG 62.704 68.421 34.97 20.16 44.68 4.63
5092 5292 2.276120 CTCGTCGACGACAGCGAG 60.276 66.667 34.97 20.88 44.22 5.03
5093 5293 1.632948 AATCTCGTCGACGACAGCGA 61.633 55.000 34.97 28.83 44.22 4.93
5094 5294 1.226046 AATCTCGTCGACGACAGCG 60.226 57.895 34.97 24.86 44.22 5.18
5095 5295 0.454620 ACAATCTCGTCGACGACAGC 60.455 55.000 34.97 0.00 44.22 4.40
5096 5296 2.695148 CTACAATCTCGTCGACGACAG 58.305 52.381 34.97 25.92 44.22 3.51
5097 5297 1.201998 GCTACAATCTCGTCGACGACA 60.202 52.381 34.97 26.66 44.22 4.35
5098 5298 1.201998 TGCTACAATCTCGTCGACGAC 60.202 52.381 34.97 22.56 44.22 4.34
5100 5300 1.181001 GTGCTACAATCTCGTCGACG 58.819 55.000 31.30 31.30 41.45 5.12
5101 5301 1.181001 CGTGCTACAATCTCGTCGAC 58.819 55.000 5.18 5.18 0.00 4.20
5102 5302 0.098200 CCGTGCTACAATCTCGTCGA 59.902 55.000 0.00 0.00 0.00 4.20
5103 5303 0.179171 ACCGTGCTACAATCTCGTCG 60.179 55.000 0.00 0.00 0.00 5.12
5104 5304 1.132643 AGACCGTGCTACAATCTCGTC 59.867 52.381 0.00 0.00 0.00 4.20
5105 5305 1.132643 GAGACCGTGCTACAATCTCGT 59.867 52.381 0.00 0.00 0.00 4.18
5122 5322 3.447586 CGAAGATAGAAACCCACTGGAGA 59.552 47.826 0.00 0.00 34.81 3.71
5124 5324 2.093658 GCGAAGATAGAAACCCACTGGA 60.094 50.000 0.00 0.00 34.81 3.86
5135 5335 2.554142 CACATTGCAGGCGAAGATAGA 58.446 47.619 0.00 0.00 0.00 1.98
5139 5339 1.675310 CCCACATTGCAGGCGAAGA 60.675 57.895 0.00 0.00 0.00 2.87
5145 5345 2.201708 TGTGTGCCCACATTGCAGG 61.202 57.895 0.00 0.00 46.45 4.85
5189 5389 2.023601 GTCGCGTGCAAACCGTTT 59.976 55.556 5.77 0.00 0.00 3.60
5221 5421 1.785430 GATTTACTTCGGTCGATCGGC 59.215 52.381 19.53 14.41 0.00 5.54
5226 5426 3.244976 GGAAACGATTTACTTCGGTCGA 58.755 45.455 0.30 0.00 38.28 4.20
5252 5452 0.037882 TCTCGCTCTTGCAAGTCCAG 60.038 55.000 25.19 16.54 39.64 3.86
5314 5514 9.508567 GCACAAATAAAAAGCAAAAATACCAAA 57.491 25.926 0.00 0.00 0.00 3.28
5315 5515 7.852945 CGCACAAATAAAAAGCAAAAATACCAA 59.147 29.630 0.00 0.00 0.00 3.67
5316 5516 7.348201 CGCACAAATAAAAAGCAAAAATACCA 58.652 30.769 0.00 0.00 0.00 3.25
5317 5517 6.794636 CCGCACAAATAAAAAGCAAAAATACC 59.205 34.615 0.00 0.00 0.00 2.73
5318 5518 7.568433 TCCGCACAAATAAAAAGCAAAAATAC 58.432 30.769 0.00 0.00 0.00 1.89
5319 5519 7.715265 TCCGCACAAATAAAAAGCAAAAATA 57.285 28.000 0.00 0.00 0.00 1.40
5320 5520 6.610741 TCCGCACAAATAAAAAGCAAAAAT 57.389 29.167 0.00 0.00 0.00 1.82
5321 5521 6.128282 TGTTCCGCACAAATAAAAAGCAAAAA 60.128 30.769 0.00 0.00 29.87 1.94
5322 5522 5.351465 TGTTCCGCACAAATAAAAAGCAAAA 59.649 32.000 0.00 0.00 29.87 2.44
5323 5523 4.870426 TGTTCCGCACAAATAAAAAGCAAA 59.130 33.333 0.00 0.00 29.87 3.68
5324 5524 4.433615 TGTTCCGCACAAATAAAAAGCAA 58.566 34.783 0.00 0.00 29.87 3.91
5325 5525 4.046938 TGTTCCGCACAAATAAAAAGCA 57.953 36.364 0.00 0.00 29.87 3.91
5326 5526 4.506288 ACTTGTTCCGCACAAATAAAAAGC 59.494 37.500 0.71 0.00 45.11 3.51
5327 5527 6.582437 AACTTGTTCCGCACAAATAAAAAG 57.418 33.333 0.71 0.00 45.11 2.27
5328 5528 6.697892 CCTAACTTGTTCCGCACAAATAAAAA 59.302 34.615 0.71 0.00 45.11 1.94
5329 5529 6.183360 ACCTAACTTGTTCCGCACAAATAAAA 60.183 34.615 0.71 0.00 45.11 1.52
5330 5530 5.299782 ACCTAACTTGTTCCGCACAAATAAA 59.700 36.000 0.71 0.00 45.11 1.40
5331 5531 4.822896 ACCTAACTTGTTCCGCACAAATAA 59.177 37.500 0.71 0.00 45.11 1.40
5332 5532 4.214545 CACCTAACTTGTTCCGCACAAATA 59.785 41.667 0.71 0.00 45.11 1.40
5333 5533 3.004315 CACCTAACTTGTTCCGCACAAAT 59.996 43.478 0.71 0.00 45.11 2.32
5334 5534 2.356382 CACCTAACTTGTTCCGCACAAA 59.644 45.455 0.71 0.00 45.11 2.83
5335 5535 1.944024 CACCTAACTTGTTCCGCACAA 59.056 47.619 0.00 0.00 43.55 3.33
5336 5536 1.134340 ACACCTAACTTGTTCCGCACA 60.134 47.619 0.00 0.00 0.00 4.57
5337 5537 1.589803 ACACCTAACTTGTTCCGCAC 58.410 50.000 0.00 0.00 0.00 5.34
5338 5538 2.335316 AACACCTAACTTGTTCCGCA 57.665 45.000 0.00 0.00 31.30 5.69
5339 5539 3.703286 AAAACACCTAACTTGTTCCGC 57.297 42.857 0.00 0.00 36.13 5.54
5340 5540 5.199726 CGTAAAAACACCTAACTTGTTCCG 58.800 41.667 0.00 0.00 36.13 4.30
5341 5541 6.037500 AGACGTAAAAACACCTAACTTGTTCC 59.962 38.462 0.00 0.00 36.13 3.62
5342 5542 7.008440 AGACGTAAAAACACCTAACTTGTTC 57.992 36.000 0.00 0.00 36.13 3.18
5343 5543 6.990341 AGACGTAAAAACACCTAACTTGTT 57.010 33.333 0.00 0.00 38.88 2.83
5344 5544 6.676213 GCAAGACGTAAAAACACCTAACTTGT 60.676 38.462 0.00 0.00 35.16 3.16
5345 5545 5.679792 GCAAGACGTAAAAACACCTAACTTG 59.320 40.000 0.00 0.00 35.60 3.16
5346 5546 5.502869 CGCAAGACGTAAAAACACCTAACTT 60.503 40.000 0.00 0.00 43.02 2.66
5347 5547 4.025480 CGCAAGACGTAAAAACACCTAACT 60.025 41.667 0.00 0.00 43.02 2.24
5348 5548 4.025813 TCGCAAGACGTAAAAACACCTAAC 60.026 41.667 0.00 0.00 45.01 2.34
5349 5549 4.118410 TCGCAAGACGTAAAAACACCTAA 58.882 39.130 0.00 0.00 45.01 2.69
5350 5550 3.715495 TCGCAAGACGTAAAAACACCTA 58.285 40.909 0.00 0.00 45.01 3.08
5351 5551 2.542595 CTCGCAAGACGTAAAAACACCT 59.457 45.455 0.00 0.00 45.01 4.00
5352 5552 2.349155 CCTCGCAAGACGTAAAAACACC 60.349 50.000 0.00 0.00 45.01 4.16
5353 5553 2.286025 ACCTCGCAAGACGTAAAAACAC 59.714 45.455 0.00 0.00 45.01 3.32
5354 5554 2.553086 ACCTCGCAAGACGTAAAAACA 58.447 42.857 0.00 0.00 45.01 2.83
5355 5555 4.713854 TTACCTCGCAAGACGTAAAAAC 57.286 40.909 0.00 0.00 42.23 2.43
5356 5556 5.927954 AATTACCTCGCAAGACGTAAAAA 57.072 34.783 0.00 0.00 45.96 1.94
5357 5557 5.927954 AAATTACCTCGCAAGACGTAAAA 57.072 34.783 0.00 0.00 45.96 1.52
5358 5558 5.577945 CCTAAATTACCTCGCAAGACGTAAA 59.422 40.000 0.00 0.00 45.96 2.01
5359 5559 5.104374 CCTAAATTACCTCGCAAGACGTAA 58.896 41.667 0.00 0.00 46.54 3.18
5360 5560 4.158394 ACCTAAATTACCTCGCAAGACGTA 59.842 41.667 0.00 0.00 45.01 3.57
5361 5561 3.056322 ACCTAAATTACCTCGCAAGACGT 60.056 43.478 0.00 0.00 45.01 4.34
5362 5562 3.306166 CACCTAAATTACCTCGCAAGACG 59.694 47.826 0.00 0.00 45.01 4.18
5363 5563 4.092968 CACACCTAAATTACCTCGCAAGAC 59.907 45.833 0.00 0.00 45.01 3.01
5365 5565 4.000988 ACACACCTAAATTACCTCGCAAG 58.999 43.478 0.00 0.00 0.00 4.01
5366 5566 4.010667 ACACACCTAAATTACCTCGCAA 57.989 40.909 0.00 0.00 0.00 4.85
5367 5567 3.688694 ACACACCTAAATTACCTCGCA 57.311 42.857 0.00 0.00 0.00 5.10
5368 5568 6.484818 TTTAACACACCTAAATTACCTCGC 57.515 37.500 0.00 0.00 0.00 5.03
5369 5569 6.964934 GCATTTAACACACCTAAATTACCTCG 59.035 38.462 0.00 0.00 28.61 4.63
5370 5570 7.822658 TGCATTTAACACACCTAAATTACCTC 58.177 34.615 0.00 0.00 28.61 3.85
5371 5571 7.768807 TGCATTTAACACACCTAAATTACCT 57.231 32.000 0.00 0.00 28.61 3.08
5372 5572 8.247562 TGATGCATTTAACACACCTAAATTACC 58.752 33.333 0.00 0.00 28.61 2.85
5373 5573 9.801873 ATGATGCATTTAACACACCTAAATTAC 57.198 29.630 0.00 0.00 28.61 1.89
5375 5575 9.369904 GAATGATGCATTTAACACACCTAAATT 57.630 29.630 0.00 0.00 33.90 1.82
5376 5576 8.752187 AGAATGATGCATTTAACACACCTAAAT 58.248 29.630 0.00 0.00 33.90 1.40
5377 5577 8.028354 CAGAATGATGCATTTAACACACCTAAA 58.972 33.333 0.00 0.00 39.69 1.85
5378 5578 7.392953 TCAGAATGATGCATTTAACACACCTAA 59.607 33.333 0.00 0.00 42.56 2.69
5379 5579 6.883756 TCAGAATGATGCATTTAACACACCTA 59.116 34.615 0.00 0.00 42.56 3.08
5380 5580 5.711506 TCAGAATGATGCATTTAACACACCT 59.288 36.000 0.00 0.00 42.56 4.00
5381 5581 5.953183 TCAGAATGATGCATTTAACACACC 58.047 37.500 0.00 0.00 42.56 4.16
5415 5615 6.271566 GTTTAGATCACTAAAGTACCGAGGG 58.728 44.000 0.00 0.00 45.42 4.30
5418 5618 5.954150 AGGGTTTAGATCACTAAAGTACCGA 59.046 40.000 0.00 0.00 45.42 4.69
5419 5619 6.218108 AGGGTTTAGATCACTAAAGTACCG 57.782 41.667 0.00 0.00 45.42 4.02
5420 5620 8.859236 AAAAGGGTTTAGATCACTAAAGTACC 57.141 34.615 0.00 0.00 45.42 3.34
5447 5647 9.880157 AGCGTTTAGAAATTTAGACCACTATTA 57.120 29.630 0.00 0.00 0.00 0.98
5448 5648 8.788325 AGCGTTTAGAAATTTAGACCACTATT 57.212 30.769 0.00 0.00 0.00 1.73
5449 5649 8.788325 AAGCGTTTAGAAATTTAGACCACTAT 57.212 30.769 0.00 0.00 0.00 2.12
5471 5671 9.274206 CTCCCTCTGTAAAGGTATTATAAAAGC 57.726 37.037 0.00 0.00 34.34 3.51
5484 5684 5.426504 TCGTCTAGTACTCCCTCTGTAAAG 58.573 45.833 0.00 0.00 0.00 1.85
5546 5747 2.503331 TGGGTCGTGACGTAGACTAAA 58.497 47.619 4.40 2.75 37.52 1.85
5553 5754 1.682854 AGAACTTTGGGTCGTGACGTA 59.317 47.619 4.40 0.00 0.00 3.57
5612 5813 0.761802 ATGGCCCCGCAAAAGAAAAA 59.238 45.000 0.00 0.00 0.00 1.94
5613 5814 0.761802 AATGGCCCCGCAAAAGAAAA 59.238 45.000 0.00 0.00 0.00 2.29
5614 5815 0.034616 CAATGGCCCCGCAAAAGAAA 59.965 50.000 0.00 0.00 0.00 2.52
5615 5816 0.829602 TCAATGGCCCCGCAAAAGAA 60.830 50.000 0.00 0.00 0.00 2.52
5616 5817 1.228706 TCAATGGCCCCGCAAAAGA 60.229 52.632 0.00 0.00 0.00 2.52
5617 5818 1.079888 GTCAATGGCCCCGCAAAAG 60.080 57.895 0.00 0.00 0.00 2.27
5628 5829 5.299531 TCGTATTCAGAGGTAGAGTCAATGG 59.700 44.000 0.00 0.00 0.00 3.16
5630 5831 5.299782 GGTCGTATTCAGAGGTAGAGTCAAT 59.700 44.000 0.00 0.00 0.00 2.57
5662 5863 8.046107 GCCTAATCATAGCTGGAAGATAAAGAT 58.954 37.037 0.00 0.00 38.90 2.40
5663 5864 7.016563 TGCCTAATCATAGCTGGAAGATAAAGA 59.983 37.037 0.00 0.00 38.90 2.52
5664 5865 7.164122 TGCCTAATCATAGCTGGAAGATAAAG 58.836 38.462 0.00 0.00 38.90 1.85
5676 5878 2.224066 ACCGTGTCTGCCTAATCATAGC 60.224 50.000 0.00 0.00 0.00 2.97
5686 5888 3.332034 ACATACTTAAACCGTGTCTGCC 58.668 45.455 0.00 0.00 0.00 4.85
5703 5905 6.748658 GCATTACCGCGTATGATAGTTACATA 59.251 38.462 4.92 0.00 0.00 2.29
5711 5913 4.219070 AGGTTAGCATTACCGCGTATGATA 59.781 41.667 4.92 6.18 40.69 2.15
5720 5922 7.208080 ACTGTTATTCTAGGTTAGCATTACCG 58.792 38.462 0.00 0.00 40.69 4.02
5724 5926 8.024145 AGCTACTGTTATTCTAGGTTAGCATT 57.976 34.615 0.00 0.00 0.00 3.56


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

AutoCloner maintained by Alex Coulton.