Multiple sequence alignment - TraesCS2D01G570900

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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 TraesCS2D01G570900 chr2D 100.000 4451 0 0 1 4451 637635199 637630749 0.000000e+00 8220
1 TraesCS2D01G570900 chr2D 86.335 644 58 13 2817 3451 637606936 637606314 0.000000e+00 675
2 TraesCS2D01G570900 chr2D 94.416 197 7 1 2466 2662 637607282 637607090 2.600000e-77 300
3 TraesCS2D01G570900 chr2D 94.898 98 5 0 4351 4448 7318705 7318608 2.140000e-33 154
4 TraesCS2D01G570900 chr2D 96.341 82 2 1 2298 2379 637608185 637608105 2.790000e-27 134
5 TraesCS2D01G570900 chr2A 89.913 4382 264 73 8 4324 762314754 762319022 0.000000e+00 5480
6 TraesCS2D01G570900 chr2A 79.885 522 65 24 2866 3375 762323959 762324452 3.300000e-91 346
7 TraesCS2D01G570900 chr2B 90.162 4320 259 67 71 4346 795049345 795045148 0.000000e+00 5470
8 TraesCS2D01G570900 chr2B 83.521 886 102 27 1188 2063 98258156 98259007 0.000000e+00 787
9 TraesCS2D01G570900 chr2B 83.333 822 93 26 1259 2066 545170459 545169668 0.000000e+00 719
10 TraesCS2D01G570900 chr2B 96.296 81 3 0 3189 3269 794996222 794996142 2.790000e-27 134
11 TraesCS2D01G570900 chr3A 86.010 822 91 13 1071 1885 610535670 610536474 0.000000e+00 859
12 TraesCS2D01G570900 chr3A 85.732 813 100 10 1071 1882 610529588 610530385 0.000000e+00 845
13 TraesCS2D01G570900 chr3A 85.627 814 99 13 1071 1882 610530804 610531601 0.000000e+00 839
14 TraesCS2D01G570900 chr3A 85.627 814 99 13 1071 1882 610532020 610532817 0.000000e+00 839
15 TraesCS2D01G570900 chr3A 85.627 814 100 11 1071 1882 610533236 610534034 0.000000e+00 839
16 TraesCS2D01G570900 chr3A 83.357 715 79 24 1362 2062 572536597 572537285 3.780000e-175 625
17 TraesCS2D01G570900 chr7A 85.575 818 100 11 1071 1885 580495947 580496749 0.000000e+00 841
18 TraesCS2D01G570900 chr6A 85.679 810 100 10 1077 1885 196013643 196014437 0.000000e+00 839
19 TraesCS2D01G570900 chr6A 93.269 104 7 0 4345 4448 346695534 346695431 2.140000e-33 154
20 TraesCS2D01G570900 chr4A 85.330 818 104 10 1071 1885 603654476 603655280 0.000000e+00 832
21 TraesCS2D01G570900 chr1A 83.032 884 106 27 1188 2061 96731926 96732775 0.000000e+00 761
22 TraesCS2D01G570900 chr1A 86.654 547 50 14 145 688 168548619 168548093 6.420000e-163 584
23 TraesCS2D01G570900 chr7B 95.960 99 4 0 4350 4448 463343691 463343593 1.280000e-35 161
24 TraesCS2D01G570900 chr4B 95.960 99 4 0 4351 4449 197026068 197026166 1.280000e-35 161
25 TraesCS2D01G570900 chr3D 95.960 99 4 0 4350 4448 35577003 35576905 1.280000e-35 161
26 TraesCS2D01G570900 chr3D 92.727 110 6 2 4340 4448 11029286 11029394 1.660000e-34 158
27 TraesCS2D01G570900 chr5B 95.050 101 5 0 4348 4448 58328462 58328362 4.610000e-35 159
28 TraesCS2D01G570900 chr5A 95.918 98 4 0 4351 4448 541357309 541357212 4.610000e-35 159
29 TraesCS2D01G570900 chr6D 95.000 100 5 0 4349 4448 249341769 249341868 1.660000e-34 158


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 TraesCS2D01G570900 chr2D 637630749 637635199 4450 True 8220.000000 8220 100.0000 1 4451 1 chr2D.!!$R2 4450
1 TraesCS2D01G570900 chr2D 637606314 637608185 1871 True 369.666667 675 92.3640 2298 3451 3 chr2D.!!$R3 1153
2 TraesCS2D01G570900 chr2A 762314754 762319022 4268 False 5480.000000 5480 89.9130 8 4324 1 chr2A.!!$F1 4316
3 TraesCS2D01G570900 chr2B 795045148 795049345 4197 True 5470.000000 5470 90.1620 71 4346 1 chr2B.!!$R3 4275
4 TraesCS2D01G570900 chr2B 98258156 98259007 851 False 787.000000 787 83.5210 1188 2063 1 chr2B.!!$F1 875
5 TraesCS2D01G570900 chr2B 545169668 545170459 791 True 719.000000 719 83.3330 1259 2066 1 chr2B.!!$R1 807
6 TraesCS2D01G570900 chr3A 610529588 610536474 6886 False 844.200000 859 85.7246 1071 1885 5 chr3A.!!$F2 814
7 TraesCS2D01G570900 chr3A 572536597 572537285 688 False 625.000000 625 83.3570 1362 2062 1 chr3A.!!$F1 700
8 TraesCS2D01G570900 chr7A 580495947 580496749 802 False 841.000000 841 85.5750 1071 1885 1 chr7A.!!$F1 814
9 TraesCS2D01G570900 chr6A 196013643 196014437 794 False 839.000000 839 85.6790 1077 1885 1 chr6A.!!$F1 808
10 TraesCS2D01G570900 chr4A 603654476 603655280 804 False 832.000000 832 85.3300 1071 1885 1 chr4A.!!$F1 814
11 TraesCS2D01G570900 chr1A 96731926 96732775 849 False 761.000000 761 83.0320 1188 2061 1 chr1A.!!$F1 873
12 TraesCS2D01G570900 chr1A 168548093 168548619 526 True 584.000000 584 86.6540 145 688 1 chr1A.!!$R1 543

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
194 205 0.679505 ACTTACTGCCGAGCTTGTCA 59.320 50.000 0.00 0.0 0.0 3.58 F
597 615 1.067283 CGCCGCCATTAGAGATGAGAT 60.067 52.381 0.00 0.0 0.0 2.75 F
1723 7878 0.394762 GCAGCACCCAGGATCATGAA 60.395 55.000 9.37 0.0 0.0 2.57 F
1919 8120 0.601057 TTTCATCGACCGAGTGCTCA 59.399 50.000 0.00 0.0 0.0 4.26 F
3276 10259 1.195442 TTGGTGGTATGTGAGCCGGA 61.195 55.000 5.05 0.0 0.0 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1699 7854 0.322816 GATCCTGGGTGCTGCTGAAA 60.323 55.000 0.00 0.00 0.00 2.69 R
1899 8098 1.272781 GAGCACTCGGTCGATGAAAG 58.727 55.000 0.00 0.00 0.00 2.62 R
2932 9913 0.407139 AGGCTGAAAGGGCAACTGAT 59.593 50.000 0.00 0.00 0.00 2.90 R
3420 10418 1.141019 ATCGTCGCCGTGCAGTATT 59.859 52.632 0.00 0.00 35.01 1.89 R
4429 11429 0.321671 TGCTCTTTCTAACCAGCGCT 59.678 50.000 2.64 2.64 34.39 5.92 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
29 30 5.927030 TCGAGTGCAAATGATAAACTGAAC 58.073 37.500 0.00 0.00 0.00 3.18
62 63 5.718801 ACTCCTCTACTAGAGTCATCCAA 57.281 43.478 11.46 0.00 40.72 3.53
63 64 5.690865 ACTCCTCTACTAGAGTCATCCAAG 58.309 45.833 11.46 1.80 40.72 3.61
64 65 4.465886 TCCTCTACTAGAGTCATCCAAGC 58.534 47.826 11.46 0.00 40.72 4.01
69 80 7.068839 CCTCTACTAGAGTCATCCAAGCTTTAA 59.931 40.741 11.46 0.00 40.72 1.52
122 133 5.422650 ACTCTGGGAATTCTACAAGAGGTAC 59.577 44.000 20.78 0.00 0.00 3.34
159 170 9.403110 CAAATTCATCTTCTTGTAAACTGGAAG 57.597 33.333 0.00 0.00 42.29 3.46
161 172 5.003804 TCATCTTCTTGTAAACTGGAAGCC 58.996 41.667 0.00 0.00 37.60 4.35
167 178 1.810151 TGTAAACTGGAAGCCGAATGC 59.190 47.619 0.00 0.00 37.60 3.56
168 179 1.810151 GTAAACTGGAAGCCGAATGCA 59.190 47.619 0.00 0.00 44.83 3.96
175 186 1.382522 GAAGCCGAATGCATCCTGAA 58.617 50.000 0.00 0.00 44.83 3.02
194 205 0.679505 ACTTACTGCCGAGCTTGTCA 59.320 50.000 0.00 0.00 0.00 3.58
310 321 1.448013 GCCGGTACCTTCAGAGCAC 60.448 63.158 10.90 0.00 0.00 4.40
378 391 1.690633 GAGGAGATGCAGGTGGGGA 60.691 63.158 0.00 0.00 0.00 4.81
379 392 1.977293 GAGGAGATGCAGGTGGGGAC 61.977 65.000 0.00 0.00 0.00 4.46
382 395 3.399181 GATGCAGGTGGGGACGGA 61.399 66.667 0.00 0.00 0.00 4.69
383 396 3.682292 GATGCAGGTGGGGACGGAC 62.682 68.421 0.00 0.00 0.00 4.79
538 554 3.997064 CTCCTTGAGCGCCTCCACG 62.997 68.421 2.29 0.00 0.00 4.94
548 564 4.742201 CCTCCACGGTGGTCTGCG 62.742 72.222 25.53 10.64 39.03 5.18
549 565 3.680786 CTCCACGGTGGTCTGCGA 61.681 66.667 25.53 5.47 39.03 5.10
550 566 3.633094 CTCCACGGTGGTCTGCGAG 62.633 68.421 25.53 11.53 39.03 5.03
552 568 4.662961 CACGGTGGTCTGCGAGCA 62.663 66.667 0.00 6.39 37.74 4.26
566 582 2.993840 AGCAGAGCAGAGCGGACA 60.994 61.111 0.00 0.00 35.48 4.02
597 615 1.067283 CGCCGCCATTAGAGATGAGAT 60.067 52.381 0.00 0.00 0.00 2.75
598 616 2.615869 GCCGCCATTAGAGATGAGATC 58.384 52.381 0.00 0.00 0.00 2.75
599 617 2.676463 GCCGCCATTAGAGATGAGATCC 60.676 54.545 0.00 0.00 0.00 3.36
600 618 2.564504 CCGCCATTAGAGATGAGATCCA 59.435 50.000 0.00 0.00 0.00 3.41
601 619 3.007290 CCGCCATTAGAGATGAGATCCAA 59.993 47.826 0.00 0.00 0.00 3.53
602 620 4.244066 CGCCATTAGAGATGAGATCCAAG 58.756 47.826 0.00 0.00 0.00 3.61
603 621 4.002316 GCCATTAGAGATGAGATCCAAGC 58.998 47.826 0.00 0.00 0.00 4.01
604 622 4.262981 GCCATTAGAGATGAGATCCAAGCT 60.263 45.833 0.00 0.00 0.00 3.74
605 623 5.239351 CCATTAGAGATGAGATCCAAGCTG 58.761 45.833 0.00 0.00 0.00 4.24
606 624 4.952071 TTAGAGATGAGATCCAAGCTGG 57.048 45.455 0.00 0.00 39.43 4.85
614 632 2.283894 TCCAAGCTGGAGGCGAGA 60.284 61.111 0.00 0.00 42.67 4.04
626 659 2.251075 GCGAGATCCGAGCGAGAG 59.749 66.667 7.64 0.00 41.76 3.20
773 814 4.016629 CGGTGACCACGACGACGA 62.017 66.667 15.32 0.00 42.66 4.20
774 815 2.428071 GGTGACCACGACGACGAC 60.428 66.667 15.32 0.63 42.66 4.34
775 816 2.794166 GTGACCACGACGACGACG 60.794 66.667 17.60 17.60 42.66 5.12
776 817 2.966537 TGACCACGACGACGACGA 60.967 61.111 25.15 0.25 42.66 4.20
777 818 2.498466 GACCACGACGACGACGAC 60.498 66.667 25.15 7.02 42.66 4.34
778 819 2.947890 GACCACGACGACGACGACT 61.948 63.158 25.15 7.39 42.66 4.18
779 820 2.202146 CCACGACGACGACGACTC 60.202 66.667 25.15 0.78 42.66 3.36
791 832 1.465387 CGACGACTCTCTGCTAGTGTT 59.535 52.381 0.00 0.00 32.13 3.32
792 833 2.726373 CGACGACTCTCTGCTAGTGTTG 60.726 54.545 0.00 7.25 38.53 3.33
793 834 1.542030 ACGACTCTCTGCTAGTGTTGG 59.458 52.381 11.37 4.42 37.40 3.77
794 835 1.734047 CGACTCTCTGCTAGTGTTGGC 60.734 57.143 0.00 0.00 32.13 4.52
1413 7548 2.686106 GAGGCGGGGTACAGGGAA 60.686 66.667 0.00 0.00 0.00 3.97
1608 7763 5.533154 TCTCCTAGCTAGCAGTTCATACTTC 59.467 44.000 18.83 0.00 30.26 3.01
1620 7775 8.472413 AGCAGTTCATACTTCAAATGCATTATT 58.528 29.630 13.39 0.00 44.16 1.40
1621 7776 9.734620 GCAGTTCATACTTCAAATGCATTATTA 57.265 29.630 13.39 0.00 41.94 0.98
1699 7854 3.776969 TGGAGTGCATAATCAGGAGAGTT 59.223 43.478 0.00 0.00 0.00 3.01
1711 7866 0.877743 GGAGAGTTTTCAGCAGCACC 59.122 55.000 0.00 0.00 0.00 5.01
1723 7878 0.394762 GCAGCACCCAGGATCATGAA 60.395 55.000 9.37 0.00 0.00 2.57
1756 7911 1.339247 TGCCCGGTCGACATGTAATTT 60.339 47.619 18.91 0.00 0.00 1.82
1887 8086 1.604185 GCTGGATCGCTGTATGTCTCC 60.604 57.143 0.00 0.00 0.00 3.71
1899 8098 3.767673 TGTATGTCTCCAGTTCCCTACAC 59.232 47.826 0.00 0.00 0.00 2.90
1910 8109 3.056035 AGTTCCCTACACTTTCATCGACC 60.056 47.826 0.00 0.00 0.00 4.79
1919 8120 0.601057 TTTCATCGACCGAGTGCTCA 59.399 50.000 0.00 0.00 0.00 4.26
2077 8283 3.711541 ATCGGTTGCGTACGCCCTC 62.712 63.158 35.11 23.79 41.09 4.30
2086 8292 1.355916 GTACGCCCTCGCTAGAGTG 59.644 63.158 0.00 0.00 42.86 3.51
2641 9580 5.239525 AGGTGTAGAGATTTGCAACTTCAAC 59.760 40.000 0.00 0.00 0.00 3.18
2711 9650 5.120399 TGTAGCCAAATAATCGAATTCCGT 58.880 37.500 0.00 0.00 39.75 4.69
2740 9680 3.119291 GAGAGATGCGGTGACTGTAATG 58.881 50.000 0.00 0.00 0.00 1.90
2763 9703 7.615582 TGTATTTGCCTTCTCAGAATAGTTG 57.384 36.000 0.00 0.00 0.00 3.16
2764 9704 6.599244 TGTATTTGCCTTCTCAGAATAGTTGG 59.401 38.462 0.00 0.00 0.00 3.77
2793 9733 5.089970 TCATGTCTTGCTGCTACTGTAAT 57.910 39.130 0.00 0.00 0.00 1.89
2799 9739 7.331026 TGTCTTGCTGCTACTGTAATTATCTT 58.669 34.615 0.00 0.00 0.00 2.40
2932 9913 4.818005 TCTATTCGTCGCAGTCAAGGTATA 59.182 41.667 0.00 0.00 0.00 1.47
3003 9985 8.040727 GCTTTTATAAACCCCACAATGAAAGAT 58.959 33.333 0.00 0.00 30.58 2.40
3077 10059 3.060003 GCTACGCATTGCTGAAGATGTAG 60.060 47.826 7.12 9.59 33.09 2.74
3162 10145 3.251729 AGCACTTTGTGTATGAACAGCAG 59.748 43.478 0.00 0.00 35.91 4.24
3182 10165 4.567159 GCAGCTGTACTTACTTATGGTGAC 59.433 45.833 16.64 0.00 0.00 3.67
3185 10168 5.484290 AGCTGTACTTACTTATGGTGACCTT 59.516 40.000 2.11 0.00 0.00 3.50
3186 10169 5.581085 GCTGTACTTACTTATGGTGACCTTG 59.419 44.000 2.11 0.00 0.00 3.61
3276 10259 1.195442 TTGGTGGTATGTGAGCCGGA 61.195 55.000 5.05 0.00 0.00 5.14
3420 10418 0.325671 AGGAGGCCCTTCTCGAATCA 60.326 55.000 0.00 0.00 40.78 2.57
3472 10470 4.952262 TGCTTACTTGCATGATGAGAAC 57.048 40.909 6.60 0.00 38.12 3.01
3505 10503 7.347508 ACGTAGATTGTATGTTTGTGAGAAC 57.652 36.000 0.00 0.00 0.00 3.01
3580 10578 5.093677 TGCAGGTAGGGATGATACACATAT 58.906 41.667 0.00 0.00 39.56 1.78
3589 10587 5.297547 GGATGATACACATATCGTTGGTGT 58.702 41.667 0.00 0.00 46.57 4.16
3617 10615 3.666883 TGTGTTTGTAAAGCGAGTGTG 57.333 42.857 0.00 0.00 0.00 3.82
3642 10640 2.470983 AGAAGAAGCTGCAGGTCTTC 57.529 50.000 30.14 30.14 39.08 2.87
3718 10716 4.984161 CCATGGTGAAACAAAACAGACATC 59.016 41.667 2.57 0.00 39.98 3.06
3739 10737 6.820656 ACATCATTTGTCTATGAGTTGGAGAC 59.179 38.462 0.00 0.00 37.91 3.36
3742 10740 7.044181 TCATTTGTCTATGAGTTGGAGACATC 58.956 38.462 4.90 0.00 46.63 3.06
4004 11004 7.489435 TCACTTCAAAATATCTCGCTTACTCTG 59.511 37.037 0.00 0.00 0.00 3.35
4005 11005 7.489435 CACTTCAAAATATCTCGCTTACTCTGA 59.511 37.037 0.00 0.00 0.00 3.27
4006 11006 8.200792 ACTTCAAAATATCTCGCTTACTCTGAT 58.799 33.333 0.00 0.00 0.00 2.90
4007 11007 9.684448 CTTCAAAATATCTCGCTTACTCTGATA 57.316 33.333 0.00 0.00 0.00 2.15
4055 11055 6.628919 AAGTTCAATAACCACCAACAGTAC 57.371 37.500 0.00 0.00 36.15 2.73
4067 11067 5.389725 CCACCAACAGTACCGTATTTTAACG 60.390 44.000 0.00 0.00 42.49 3.18
4104 11104 8.289618 TCACTATGTTCATTACAAAAAGCACTC 58.710 33.333 0.00 0.00 40.89 3.51
4105 11105 8.292448 CACTATGTTCATTACAAAAAGCACTCT 58.708 33.333 0.00 0.00 40.89 3.24
4108 11108 5.748152 TGTTCATTACAAAAAGCACTCTTGC 59.252 36.000 0.00 0.00 40.72 4.01
4119 11119 1.467543 GCACTCTTGCGATACTCGACA 60.468 52.381 0.00 0.00 43.74 4.35
4129 11129 4.565166 TGCGATACTCGACACCAAAATTAG 59.435 41.667 0.00 0.00 43.74 1.73
4140 11140 8.455682 TCGACACCAAAATTAGGAAATCATTAC 58.544 33.333 4.01 0.00 0.00 1.89
4229 11229 9.513727 GAAATCTCAATTTGATCCTTTTAGAGC 57.486 33.333 0.00 0.00 35.21 4.09
4347 11347 6.214191 ACTAAGATGATATAGCATGGGTCG 57.786 41.667 8.49 0.00 0.00 4.79
4348 11348 5.717178 ACTAAGATGATATAGCATGGGTCGT 59.283 40.000 8.49 0.00 0.00 4.34
4349 11349 5.489792 AAGATGATATAGCATGGGTCGTT 57.510 39.130 8.49 0.00 0.00 3.85
4350 11350 5.078411 AGATGATATAGCATGGGTCGTTC 57.922 43.478 8.49 0.00 0.00 3.95
4351 11351 4.528206 AGATGATATAGCATGGGTCGTTCA 59.472 41.667 8.49 0.00 0.00 3.18
4352 11352 3.990092 TGATATAGCATGGGTCGTTCAC 58.010 45.455 0.00 0.00 0.00 3.18
4353 11353 3.641436 TGATATAGCATGGGTCGTTCACT 59.359 43.478 0.00 0.00 0.00 3.41
4354 11354 4.830600 TGATATAGCATGGGTCGTTCACTA 59.169 41.667 0.00 0.00 0.00 2.74
4355 11355 2.953466 TAGCATGGGTCGTTCACTAC 57.047 50.000 0.00 0.00 0.00 2.73
4356 11356 1.267121 AGCATGGGTCGTTCACTACT 58.733 50.000 0.00 0.00 0.00 2.57
4357 11357 2.453521 AGCATGGGTCGTTCACTACTA 58.546 47.619 0.00 0.00 0.00 1.82
4358 11358 2.427453 AGCATGGGTCGTTCACTACTAG 59.573 50.000 0.00 0.00 0.00 2.57
4359 11359 2.481449 GCATGGGTCGTTCACTACTAGG 60.481 54.545 0.00 0.00 0.00 3.02
4360 11360 2.885135 TGGGTCGTTCACTACTAGGA 57.115 50.000 0.00 0.00 0.00 2.94
4361 11361 3.159213 TGGGTCGTTCACTACTAGGAA 57.841 47.619 0.00 0.00 0.00 3.36
4362 11362 3.499338 TGGGTCGTTCACTACTAGGAAA 58.501 45.455 0.00 0.00 0.00 3.13
4363 11363 3.896888 TGGGTCGTTCACTACTAGGAAAA 59.103 43.478 0.00 0.00 0.00 2.29
4364 11364 4.529377 TGGGTCGTTCACTACTAGGAAAAT 59.471 41.667 0.00 0.00 0.00 1.82
4365 11365 4.868734 GGGTCGTTCACTACTAGGAAAATG 59.131 45.833 0.00 0.00 0.00 2.32
4366 11366 4.329256 GGTCGTTCACTACTAGGAAAATGC 59.671 45.833 0.00 0.00 0.00 3.56
4367 11367 5.169295 GTCGTTCACTACTAGGAAAATGCT 58.831 41.667 0.00 0.00 0.00 3.79
4368 11368 5.638234 GTCGTTCACTACTAGGAAAATGCTT 59.362 40.000 0.00 0.00 0.00 3.91
4369 11369 6.810182 GTCGTTCACTACTAGGAAAATGCTTA 59.190 38.462 0.00 0.00 0.00 3.09
4370 11370 7.491696 GTCGTTCACTACTAGGAAAATGCTTAT 59.508 37.037 0.00 0.00 0.00 1.73
4371 11371 8.689061 TCGTTCACTACTAGGAAAATGCTTATA 58.311 33.333 0.00 0.00 0.00 0.98
4372 11372 8.969267 CGTTCACTACTAGGAAAATGCTTATAG 58.031 37.037 0.00 0.00 0.00 1.31
4390 11390 8.861086 TGCTTATAGATAGAAGTTTACCAGAGG 58.139 37.037 0.00 0.00 0.00 3.69
4391 11391 7.815549 GCTTATAGATAGAAGTTTACCAGAGGC 59.184 40.741 0.00 0.00 0.00 4.70
4392 11392 4.657436 AGATAGAAGTTTACCAGAGGCG 57.343 45.455 0.00 0.00 0.00 5.52
4393 11393 4.024670 AGATAGAAGTTTACCAGAGGCGT 58.975 43.478 0.00 0.00 0.00 5.68
4394 11394 4.466726 AGATAGAAGTTTACCAGAGGCGTT 59.533 41.667 0.00 0.00 0.00 4.84
4395 11395 3.487120 AGAAGTTTACCAGAGGCGTTT 57.513 42.857 0.00 0.00 0.00 3.60
4396 11396 3.139077 AGAAGTTTACCAGAGGCGTTTG 58.861 45.455 0.00 0.00 0.00 2.93
4397 11397 2.632987 AGTTTACCAGAGGCGTTTGT 57.367 45.000 0.00 0.00 0.00 2.83
4398 11398 2.927028 AGTTTACCAGAGGCGTTTGTT 58.073 42.857 0.00 0.00 0.00 2.83
4399 11399 3.284617 AGTTTACCAGAGGCGTTTGTTT 58.715 40.909 0.00 0.00 0.00 2.83
4400 11400 4.453751 AGTTTACCAGAGGCGTTTGTTTA 58.546 39.130 0.00 0.00 0.00 2.01
4401 11401 5.067954 AGTTTACCAGAGGCGTTTGTTTAT 58.932 37.500 0.00 0.00 0.00 1.40
4402 11402 5.048991 AGTTTACCAGAGGCGTTTGTTTATG 60.049 40.000 0.00 0.00 0.00 1.90
4403 11403 3.134574 ACCAGAGGCGTTTGTTTATGA 57.865 42.857 0.00 0.00 0.00 2.15
4404 11404 2.812011 ACCAGAGGCGTTTGTTTATGAC 59.188 45.455 0.00 0.00 0.00 3.06
4405 11405 2.161609 CCAGAGGCGTTTGTTTATGACC 59.838 50.000 0.00 0.00 0.00 4.02
4406 11406 2.161609 CAGAGGCGTTTGTTTATGACCC 59.838 50.000 0.00 0.00 0.00 4.46
4407 11407 1.471287 GAGGCGTTTGTTTATGACCCC 59.529 52.381 0.00 0.00 0.00 4.95
4408 11408 1.202952 AGGCGTTTGTTTATGACCCCA 60.203 47.619 0.00 0.00 0.00 4.96
4409 11409 1.068125 GGCGTTTGTTTATGACCCCAC 60.068 52.381 0.00 0.00 0.00 4.61
4410 11410 1.609555 GCGTTTGTTTATGACCCCACA 59.390 47.619 0.00 0.00 0.00 4.17
4411 11411 2.606065 GCGTTTGTTTATGACCCCACAC 60.606 50.000 0.00 0.00 0.00 3.82
4412 11412 2.882137 CGTTTGTTTATGACCCCACACT 59.118 45.455 0.00 0.00 0.00 3.55
4413 11413 4.066490 CGTTTGTTTATGACCCCACACTA 58.934 43.478 0.00 0.00 0.00 2.74
4414 11414 4.083696 CGTTTGTTTATGACCCCACACTAC 60.084 45.833 0.00 0.00 0.00 2.73
4415 11415 4.986054 TTGTTTATGACCCCACACTACT 57.014 40.909 0.00 0.00 0.00 2.57
4416 11416 6.232692 GTTTGTTTATGACCCCACACTACTA 58.767 40.000 0.00 0.00 0.00 1.82
4417 11417 5.670792 TGTTTATGACCCCACACTACTAG 57.329 43.478 0.00 0.00 0.00 2.57
4418 11418 5.088730 TGTTTATGACCCCACACTACTAGT 58.911 41.667 0.00 0.00 0.00 2.57
4419 11419 6.255287 TGTTTATGACCCCACACTACTAGTA 58.745 40.000 1.89 1.89 0.00 1.82
4420 11420 6.379133 TGTTTATGACCCCACACTACTAGTAG 59.621 42.308 25.30 25.30 39.04 2.57
4421 11421 4.604784 ATGACCCCACACTACTAGTAGT 57.395 45.455 26.61 26.61 46.52 2.73
4422 11422 4.393239 TGACCCCACACTACTAGTAGTT 57.607 45.455 29.08 18.61 43.35 2.24
4423 11423 5.519183 TGACCCCACACTACTAGTAGTTA 57.481 43.478 29.08 4.91 43.35 2.24
4424 11424 5.503927 TGACCCCACACTACTAGTAGTTAG 58.496 45.833 29.08 22.99 43.35 2.34
4425 11425 5.014544 TGACCCCACACTACTAGTAGTTAGT 59.985 44.000 29.08 22.26 43.35 2.24
4426 11426 6.215431 TGACCCCACACTACTAGTAGTTAGTA 59.785 42.308 29.08 9.35 43.35 1.82
4436 11436 5.055812 ACTAGTAGTTAGTAGTAGCGCTGG 58.944 45.833 22.90 0.00 40.85 4.85
4437 11437 3.883669 AGTAGTTAGTAGTAGCGCTGGT 58.116 45.455 22.90 9.61 0.00 4.00
4438 11438 4.268359 AGTAGTTAGTAGTAGCGCTGGTT 58.732 43.478 22.90 7.82 0.00 3.67
4439 11439 5.431765 AGTAGTTAGTAGTAGCGCTGGTTA 58.568 41.667 22.90 6.72 0.00 2.85
4440 11440 4.897025 AGTTAGTAGTAGCGCTGGTTAG 57.103 45.455 22.90 0.00 0.00 2.34
4441 11441 4.521146 AGTTAGTAGTAGCGCTGGTTAGA 58.479 43.478 22.90 0.00 0.00 2.10
4442 11442 4.946157 AGTTAGTAGTAGCGCTGGTTAGAA 59.054 41.667 22.90 4.77 0.00 2.10
4443 11443 5.416952 AGTTAGTAGTAGCGCTGGTTAGAAA 59.583 40.000 22.90 3.38 0.00 2.52
4444 11444 4.373348 AGTAGTAGCGCTGGTTAGAAAG 57.627 45.455 22.90 0.00 0.00 2.62
4445 11445 4.015084 AGTAGTAGCGCTGGTTAGAAAGA 58.985 43.478 22.90 0.00 0.00 2.52
4446 11446 3.512033 AGTAGCGCTGGTTAGAAAGAG 57.488 47.619 22.90 0.00 0.00 2.85
4447 11447 1.927838 GTAGCGCTGGTTAGAAAGAGC 59.072 52.381 22.90 0.00 39.24 4.09
4448 11448 0.321671 AGCGCTGGTTAGAAAGAGCA 59.678 50.000 10.39 0.00 41.13 4.26
4449 11449 1.065854 AGCGCTGGTTAGAAAGAGCAT 60.066 47.619 10.39 0.00 41.13 3.79
4450 11450 1.740025 GCGCTGGTTAGAAAGAGCATT 59.260 47.619 0.00 0.00 38.85 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.795734 CAGTTTATCATTTGCACTCGATCATAC 59.204 37.037 0.00 0.00 0.00 2.39
1 2 7.710475 TCAGTTTATCATTTGCACTCGATCATA 59.290 33.333 0.00 0.00 0.00 2.15
2 3 6.539826 TCAGTTTATCATTTGCACTCGATCAT 59.460 34.615 0.00 0.00 0.00 2.45
3 4 5.874261 TCAGTTTATCATTTGCACTCGATCA 59.126 36.000 0.00 0.00 0.00 2.92
4 5 6.349973 TCAGTTTATCATTTGCACTCGATC 57.650 37.500 0.00 0.00 0.00 3.69
5 6 6.372659 AGTTCAGTTTATCATTTGCACTCGAT 59.627 34.615 0.00 0.00 0.00 3.59
6 7 5.700832 AGTTCAGTTTATCATTTGCACTCGA 59.299 36.000 0.00 0.00 0.00 4.04
50 51 8.768397 TCCTTAATTAAAGCTTGGATGACTCTA 58.232 33.333 0.00 0.00 33.49 2.43
57 58 9.426534 AGCTTATTCCTTAATTAAAGCTTGGAT 57.573 29.630 12.11 0.00 41.23 3.41
58 59 8.686334 CAGCTTATTCCTTAATTAAAGCTTGGA 58.314 33.333 14.34 7.76 41.23 3.53
59 60 8.686334 TCAGCTTATTCCTTAATTAAAGCTTGG 58.314 33.333 14.34 5.80 41.23 3.61
62 63 9.467796 AGTTCAGCTTATTCCTTAATTAAAGCT 57.532 29.630 12.11 12.11 43.23 3.74
104 115 5.875359 CCTTGTGTACCTCTTGTAGAATTCC 59.125 44.000 0.65 0.00 0.00 3.01
122 133 3.434309 AGATGAATTTGGACCCCTTGTG 58.566 45.455 0.00 0.00 0.00 3.33
159 170 1.098050 AAGTTCAGGATGCATTCGGC 58.902 50.000 0.00 0.00 45.13 5.54
161 172 3.242543 GCAGTAAGTTCAGGATGCATTCG 60.243 47.826 0.00 0.00 34.76 3.34
167 178 2.544685 CTCGGCAGTAAGTTCAGGATG 58.455 52.381 0.00 0.00 37.54 3.51
168 179 1.134670 GCTCGGCAGTAAGTTCAGGAT 60.135 52.381 0.00 0.00 0.00 3.24
175 186 0.679505 TGACAAGCTCGGCAGTAAGT 59.320 50.000 0.00 0.00 0.00 2.24
194 205 1.884579 ACCATATCGGACGAAGCGTAT 59.115 47.619 0.00 0.00 41.37 3.06
310 321 1.741706 GCTGTTGGACTGATGATGGTG 59.258 52.381 0.00 0.00 0.00 4.17
538 554 2.125753 CTCTGCTCGCAGACCACC 60.126 66.667 17.01 0.00 46.80 4.61
548 564 2.202730 GTCCGCTCTGCTCTGCTC 60.203 66.667 0.00 0.00 0.00 4.26
549 565 2.993840 TGTCCGCTCTGCTCTGCT 60.994 61.111 0.00 0.00 0.00 4.24
550 566 2.813042 GTGTCCGCTCTGCTCTGC 60.813 66.667 0.00 0.00 0.00 4.26
551 567 1.735920 GTGTGTCCGCTCTGCTCTG 60.736 63.158 0.00 0.00 0.00 3.35
552 568 2.653702 GTGTGTCCGCTCTGCTCT 59.346 61.111 0.00 0.00 0.00 4.09
597 615 1.680522 GATCTCGCCTCCAGCTTGGA 61.681 60.000 5.03 5.03 45.98 3.53
598 616 1.227497 GATCTCGCCTCCAGCTTGG 60.227 63.158 0.00 0.00 40.39 3.61
599 617 1.227497 GGATCTCGCCTCCAGCTTG 60.227 63.158 0.00 0.00 40.39 4.01
600 618 2.790791 CGGATCTCGCCTCCAGCTT 61.791 63.158 0.00 0.00 40.39 3.74
601 619 3.222855 CGGATCTCGCCTCCAGCT 61.223 66.667 0.00 0.00 40.39 4.24
602 620 3.206211 CTCGGATCTCGCCTCCAGC 62.206 68.421 0.00 0.00 39.05 4.85
603 621 3.038280 CTCGGATCTCGCCTCCAG 58.962 66.667 0.00 0.00 39.05 3.86
604 622 3.219928 GCTCGGATCTCGCCTCCA 61.220 66.667 0.00 0.00 39.05 3.86
605 623 4.335584 CGCTCGGATCTCGCCTCC 62.336 72.222 0.00 0.00 39.05 4.30
606 624 3.248630 CTCGCTCGGATCTCGCCTC 62.249 68.421 0.00 0.00 39.05 4.70
607 625 3.283684 CTCGCTCGGATCTCGCCT 61.284 66.667 0.00 0.00 39.05 5.52
608 626 3.248630 CTCTCGCTCGGATCTCGCC 62.249 68.421 0.00 0.00 39.05 5.54
609 627 2.251075 CTCTCGCTCGGATCTCGC 59.749 66.667 0.00 0.00 39.05 5.03
610 628 2.251075 GCTCTCGCTCGGATCTCG 59.749 66.667 0.00 0.00 40.90 4.04
611 629 1.282570 CTGCTCTCGCTCGGATCTC 59.717 63.158 0.00 0.00 36.97 2.75
612 630 2.192861 CCTGCTCTCGCTCGGATCT 61.193 63.158 0.00 0.00 36.97 2.75
613 631 2.334653 CCTGCTCTCGCTCGGATC 59.665 66.667 0.00 0.00 36.97 3.36
614 632 2.441164 ACCTGCTCTCGCTCGGAT 60.441 61.111 0.00 0.00 36.97 4.18
772 813 2.414824 CCAACACTAGCAGAGAGTCGTC 60.415 54.545 0.00 0.00 0.00 4.20
773 814 1.542030 CCAACACTAGCAGAGAGTCGT 59.458 52.381 0.00 0.00 0.00 4.34
774 815 1.734047 GCCAACACTAGCAGAGAGTCG 60.734 57.143 0.00 0.00 0.00 4.18
775 816 1.734047 CGCCAACACTAGCAGAGAGTC 60.734 57.143 0.00 0.00 0.00 3.36
776 817 0.244994 CGCCAACACTAGCAGAGAGT 59.755 55.000 0.00 0.00 0.00 3.24
777 818 0.459237 CCGCCAACACTAGCAGAGAG 60.459 60.000 0.00 0.00 0.00 3.20
778 819 1.591703 CCGCCAACACTAGCAGAGA 59.408 57.895 0.00 0.00 0.00 3.10
779 820 2.103042 GCCGCCAACACTAGCAGAG 61.103 63.158 0.00 0.00 0.00 3.35
845 886 1.480869 CCACCTAGAGCCCCTACTACC 60.481 61.905 0.00 0.00 0.00 3.18
1227 6145 2.759973 CCAGGAGAGCCACGCCTA 60.760 66.667 3.76 0.00 46.70 3.93
1336 7471 4.457496 CGAGCGGGCCATGTCTGT 62.457 66.667 4.39 0.00 0.00 3.41
1413 7548 1.420514 TCCTCATCCTCCTCGTCGTAT 59.579 52.381 0.00 0.00 0.00 3.06
1623 7778 8.545420 GCATAATTTTGCAAGATGAACATTAGG 58.455 33.333 14.99 0.00 42.31 2.69
1643 7798 3.392882 TCGCGTCATCAATCTGCATAAT 58.607 40.909 5.77 0.00 0.00 1.28
1646 7801 1.328680 GTTCGCGTCATCAATCTGCAT 59.671 47.619 5.77 0.00 0.00 3.96
1699 7854 0.322816 GATCCTGGGTGCTGCTGAAA 60.323 55.000 0.00 0.00 0.00 2.69
1711 7866 2.307768 AGCAAGCATTCATGATCCTGG 58.692 47.619 0.00 0.00 0.00 4.45
1723 7878 1.748122 CGGGCAGAGAAGCAAGCAT 60.748 57.895 0.00 0.00 35.83 3.79
1756 7911 5.940192 CAACTAATTTGCAGAGTGTGGTA 57.060 39.130 0.00 0.00 0.00 3.25
1887 8086 3.927142 GTCGATGAAAGTGTAGGGAACTG 59.073 47.826 0.00 0.00 43.88 3.16
1899 8098 1.272781 GAGCACTCGGTCGATGAAAG 58.727 55.000 0.00 0.00 0.00 2.62
1910 8109 5.536554 ACTACAAATGAATTGAGCACTCG 57.463 39.130 0.00 0.00 41.85 4.18
1919 8120 9.715121 AAATCATGCTTGAACTACAAATGAATT 57.285 25.926 6.36 0.00 38.43 2.17
2008 8214 6.402550 CGTCAACCTACAATCAAATGGAGAAG 60.403 42.308 0.00 0.00 32.63 2.85
2010 8216 4.935205 CGTCAACCTACAATCAAATGGAGA 59.065 41.667 0.00 0.00 32.63 3.71
2011 8217 4.935205 TCGTCAACCTACAATCAAATGGAG 59.065 41.667 0.00 0.00 0.00 3.86
2086 8292 4.031028 CGCTTTCTACAAAGTGCATATGC 58.969 43.478 21.09 21.09 41.91 3.14
2101 8307 1.906574 TGTGATCCTTACCCGCTTTCT 59.093 47.619 0.00 0.00 0.00 2.52
2157 8364 3.327757 TGCCCTTGTCTCAGTTCAGTTAT 59.672 43.478 0.00 0.00 0.00 1.89
2456 9364 5.299279 TGAAACCTTTTCTTACAAGCAGGAG 59.701 40.000 8.06 0.00 0.00 3.69
2698 9637 5.591472 TCTCTACTTGGACGGAATTCGATTA 59.409 40.000 0.00 0.00 42.43 1.75
2703 9642 4.985538 TCTCTCTACTTGGACGGAATTC 57.014 45.455 0.00 0.00 0.00 2.17
2711 9650 1.751351 CACCGCATCTCTCTACTTGGA 59.249 52.381 0.00 0.00 0.00 3.53
2740 9680 6.823689 TCCAACTATTCTGAGAAGGCAAATAC 59.176 38.462 0.00 0.00 0.00 1.89
2812 9752 6.274579 CAATAACATATTCACAAGCATGCCA 58.725 36.000 15.66 0.00 0.00 4.92
2932 9913 0.407139 AGGCTGAAAGGGCAACTGAT 59.593 50.000 0.00 0.00 0.00 2.90
3003 9985 9.425577 CATGCCAATCATTAATTATGCATAACA 57.574 29.630 21.10 9.62 40.39 2.41
3077 10059 7.144000 CGTATAAGAATAGTGGTAACTGGACC 58.856 42.308 0.00 0.00 37.19 4.46
3162 10145 5.340439 AGGTCACCATAAGTAAGTACAGC 57.660 43.478 0.00 0.00 0.00 4.40
3182 10165 3.349927 TCAGATCCTGCATGTTTCAAGG 58.650 45.455 0.00 0.00 0.00 3.61
3185 10168 3.054213 TCCATCAGATCCTGCATGTTTCA 60.054 43.478 0.00 0.00 0.00 2.69
3186 10169 3.314635 GTCCATCAGATCCTGCATGTTTC 59.685 47.826 0.00 0.00 0.00 2.78
3276 10259 9.473640 GAAAGAAAGAAAGAAAGAATGCAATCT 57.526 29.630 0.00 0.00 0.00 2.40
3420 10418 1.141019 ATCGTCGCCGTGCAGTATT 59.859 52.632 0.00 0.00 35.01 1.89
3552 10550 5.009010 GTGTATCATCCCTACCTGCAAAATG 59.991 44.000 0.00 0.00 0.00 2.32
3580 10578 3.271729 ACACATACAACAACACCAACGA 58.728 40.909 0.00 0.00 0.00 3.85
3589 10587 6.120378 TCGCTTTACAAACACATACAACAA 57.880 33.333 0.00 0.00 0.00 2.83
3617 10615 2.087646 CCTGCAGCTTCTTCTTAACCC 58.912 52.381 8.66 0.00 0.00 4.11
3642 10640 9.224267 CTATCTACCATTACATCCTCCAAATTG 57.776 37.037 0.00 0.00 0.00 2.32
3739 10737 7.869937 ACTACTAAATCCACTCATTCATCGATG 59.130 37.037 19.61 19.61 0.00 3.84
3742 10740 9.698309 AATACTACTAAATCCACTCATTCATCG 57.302 33.333 0.00 0.00 0.00 3.84
3851 10850 5.796424 AAATGCATTTGTGGTCTCTTTCT 57.204 34.783 23.54 0.00 0.00 2.52
3973 10973 6.779117 AGCGAGATATTTTGAAGTGATGTTG 58.221 36.000 0.00 0.00 0.00 3.33
4074 11074 9.793252 GCTTTTTGTAATGAACATAGTGATGAT 57.207 29.630 0.00 0.00 38.10 2.45
4207 11207 6.484288 TGGCTCTAAAAGGATCAAATTGAGA 58.516 36.000 1.10 0.00 0.00 3.27
4214 11214 6.248433 AGTTTCATGGCTCTAAAAGGATCAA 58.752 36.000 0.00 0.00 0.00 2.57
4220 11220 7.615582 TGTGATAGTTTCATGGCTCTAAAAG 57.384 36.000 0.00 0.00 36.54 2.27
4324 11324 5.717178 ACGACCCATGCTATATCATCTTAGT 59.283 40.000 0.00 0.00 0.00 2.24
4325 11325 6.214191 ACGACCCATGCTATATCATCTTAG 57.786 41.667 0.00 0.00 0.00 2.18
4332 11332 4.258702 AGTGAACGACCCATGCTATATC 57.741 45.455 0.00 0.00 0.00 1.63
4336 11336 2.453521 AGTAGTGAACGACCCATGCTA 58.546 47.619 0.00 0.00 0.00 3.49
4339 11339 3.021695 TCCTAGTAGTGAACGACCCATG 58.978 50.000 0.00 0.00 0.00 3.66
4343 11343 4.329256 GCATTTTCCTAGTAGTGAACGACC 59.671 45.833 0.00 0.00 0.00 4.79
4345 11345 5.401531 AGCATTTTCCTAGTAGTGAACGA 57.598 39.130 0.00 0.00 0.00 3.85
4346 11346 7.772332 ATAAGCATTTTCCTAGTAGTGAACG 57.228 36.000 0.00 0.00 0.00 3.95
4364 11364 8.861086 CCTCTGGTAAACTTCTATCTATAAGCA 58.139 37.037 0.00 0.00 0.00 3.91
4365 11365 7.815549 GCCTCTGGTAAACTTCTATCTATAAGC 59.184 40.741 0.00 0.00 0.00 3.09
4366 11366 8.024285 CGCCTCTGGTAAACTTCTATCTATAAG 58.976 40.741 0.00 0.00 0.00 1.73
4367 11367 7.504911 ACGCCTCTGGTAAACTTCTATCTATAA 59.495 37.037 0.00 0.00 0.00 0.98
4368 11368 7.002879 ACGCCTCTGGTAAACTTCTATCTATA 58.997 38.462 0.00 0.00 0.00 1.31
4369 11369 5.834204 ACGCCTCTGGTAAACTTCTATCTAT 59.166 40.000 0.00 0.00 0.00 1.98
4370 11370 5.198965 ACGCCTCTGGTAAACTTCTATCTA 58.801 41.667 0.00 0.00 0.00 1.98
4371 11371 4.024670 ACGCCTCTGGTAAACTTCTATCT 58.975 43.478 0.00 0.00 0.00 1.98
4372 11372 4.388378 ACGCCTCTGGTAAACTTCTATC 57.612 45.455 0.00 0.00 0.00 2.08
4373 11373 4.820894 AACGCCTCTGGTAAACTTCTAT 57.179 40.909 0.00 0.00 0.00 1.98
4374 11374 4.202284 ACAAACGCCTCTGGTAAACTTCTA 60.202 41.667 0.00 0.00 0.00 2.10
4375 11375 3.139077 CAAACGCCTCTGGTAAACTTCT 58.861 45.455 0.00 0.00 0.00 2.85
4376 11376 2.876550 ACAAACGCCTCTGGTAAACTTC 59.123 45.455 0.00 0.00 0.00 3.01
4377 11377 2.927028 ACAAACGCCTCTGGTAAACTT 58.073 42.857 0.00 0.00 0.00 2.66
4378 11378 2.632987 ACAAACGCCTCTGGTAAACT 57.367 45.000 0.00 0.00 0.00 2.66
4379 11379 3.703286 AAACAAACGCCTCTGGTAAAC 57.297 42.857 0.00 0.00 0.00 2.01
4380 11380 5.049267 GTCATAAACAAACGCCTCTGGTAAA 60.049 40.000 0.00 0.00 0.00 2.01
4381 11381 4.453136 GTCATAAACAAACGCCTCTGGTAA 59.547 41.667 0.00 0.00 0.00 2.85
4382 11382 3.998341 GTCATAAACAAACGCCTCTGGTA 59.002 43.478 0.00 0.00 0.00 3.25
4383 11383 2.812011 GTCATAAACAAACGCCTCTGGT 59.188 45.455 0.00 0.00 0.00 4.00
4384 11384 2.161609 GGTCATAAACAAACGCCTCTGG 59.838 50.000 0.00 0.00 0.00 3.86
4385 11385 2.161609 GGGTCATAAACAAACGCCTCTG 59.838 50.000 0.00 0.00 0.00 3.35
4386 11386 2.433436 GGGTCATAAACAAACGCCTCT 58.567 47.619 0.00 0.00 0.00 3.69
4387 11387 1.471287 GGGGTCATAAACAAACGCCTC 59.529 52.381 0.00 0.00 41.43 4.70
4388 11388 1.202952 TGGGGTCATAAACAAACGCCT 60.203 47.619 8.92 0.00 44.08 5.52
4389 11389 1.068125 GTGGGGTCATAAACAAACGCC 60.068 52.381 0.00 0.00 44.03 5.68
4390 11390 1.609555 TGTGGGGTCATAAACAAACGC 59.390 47.619 0.00 0.00 0.00 4.84
4391 11391 2.882137 AGTGTGGGGTCATAAACAAACG 59.118 45.455 0.00 0.00 0.00 3.60
4392 11392 5.067954 AGTAGTGTGGGGTCATAAACAAAC 58.932 41.667 0.00 0.00 0.00 2.93
4393 11393 5.313280 AGTAGTGTGGGGTCATAAACAAA 57.687 39.130 0.00 0.00 0.00 2.83
4394 11394 4.986054 AGTAGTGTGGGGTCATAAACAA 57.014 40.909 0.00 0.00 0.00 2.83
4395 11395 5.088730 ACTAGTAGTGTGGGGTCATAAACA 58.911 41.667 0.85 0.00 0.00 2.83
4396 11396 5.672421 ACTAGTAGTGTGGGGTCATAAAC 57.328 43.478 0.85 0.00 0.00 2.01
4397 11397 6.496743 ACTACTAGTAGTGTGGGGTCATAAA 58.503 40.000 30.33 0.00 44.11 1.40
4398 11398 6.083487 ACTACTAGTAGTGTGGGGTCATAA 57.917 41.667 30.33 0.00 44.11 1.90
4399 11399 5.722172 ACTACTAGTAGTGTGGGGTCATA 57.278 43.478 30.33 0.00 44.11 2.15
4400 11400 4.604784 ACTACTAGTAGTGTGGGGTCAT 57.395 45.455 30.33 5.73 44.11 3.06
4401 11401 4.393239 AACTACTAGTAGTGTGGGGTCA 57.607 45.455 31.26 0.00 44.96 4.02
4402 11402 5.504853 ACTAACTACTAGTAGTGTGGGGTC 58.495 45.833 31.26 0.00 44.96 4.46
4403 11403 5.527026 ACTAACTACTAGTAGTGTGGGGT 57.473 43.478 31.26 21.64 44.96 4.95
4412 11412 6.183360 ACCAGCGCTACTACTAACTACTAGTA 60.183 42.308 10.99 1.89 41.35 1.82
4413 11413 5.055812 CCAGCGCTACTACTAACTACTAGT 58.944 45.833 10.99 0.00 43.58 2.57
4414 11414 5.055812 ACCAGCGCTACTACTAACTACTAG 58.944 45.833 10.99 0.00 0.00 2.57
4415 11415 5.028549 ACCAGCGCTACTACTAACTACTA 57.971 43.478 10.99 0.00 0.00 1.82
4416 11416 3.883669 ACCAGCGCTACTACTAACTACT 58.116 45.455 10.99 0.00 0.00 2.57
4417 11417 4.629251 AACCAGCGCTACTACTAACTAC 57.371 45.455 10.99 0.00 0.00 2.73
4418 11418 5.674525 TCTAACCAGCGCTACTACTAACTA 58.325 41.667 10.99 0.00 0.00 2.24
4419 11419 4.521146 TCTAACCAGCGCTACTACTAACT 58.479 43.478 10.99 0.00 0.00 2.24
4420 11420 4.889832 TCTAACCAGCGCTACTACTAAC 57.110 45.455 10.99 0.00 0.00 2.34
4421 11421 5.649395 TCTTTCTAACCAGCGCTACTACTAA 59.351 40.000 10.99 0.00 0.00 2.24
4422 11422 5.188434 TCTTTCTAACCAGCGCTACTACTA 58.812 41.667 10.99 0.00 0.00 1.82
4423 11423 4.015084 TCTTTCTAACCAGCGCTACTACT 58.985 43.478 10.99 0.00 0.00 2.57
4424 11424 4.352887 CTCTTTCTAACCAGCGCTACTAC 58.647 47.826 10.99 0.00 0.00 2.73
4425 11425 3.181489 GCTCTTTCTAACCAGCGCTACTA 60.181 47.826 10.99 0.28 0.00 1.82
4426 11426 2.417515 GCTCTTTCTAACCAGCGCTACT 60.418 50.000 10.99 0.00 0.00 2.57
4427 11427 1.927838 GCTCTTTCTAACCAGCGCTAC 59.072 52.381 10.99 0.00 0.00 3.58
4428 11428 1.548719 TGCTCTTTCTAACCAGCGCTA 59.451 47.619 10.99 0.00 34.39 4.26
4429 11429 0.321671 TGCTCTTTCTAACCAGCGCT 59.678 50.000 2.64 2.64 34.39 5.92
4430 11430 1.373570 ATGCTCTTTCTAACCAGCGC 58.626 50.000 0.00 0.00 34.39 5.92


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

AutoCloner maintained by Alex Coulton.