Multiple sequence alignment - TraesCS5B01G400900

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 TraesCS5B01G400900 chr5B 100.000 7123 0 0 1 7123 577699116 577691994 0.000000e+00 13154.0
1 TraesCS5B01G400900 chr5B 97.585 207 5 0 6436 6642 577665173 577664967 8.790000e-94 355.0
2 TraesCS5B01G400900 chr5B 95.122 41 2 0 3798 3838 577695275 577695235 1.660000e-06 65.8
3 TraesCS5B01G400900 chr5B 95.122 41 2 0 3842 3882 577695319 577695279 1.660000e-06 65.8
4 TraesCS5B01G400900 chr5D 95.948 3085 84 10 1 3057 470390840 470387769 0.000000e+00 4966.0
5 TraesCS5B01G400900 chr5D 98.021 2173 37 4 3097 5267 470387614 470385446 0.000000e+00 3770.0
6 TraesCS5B01G400900 chr5D 93.002 986 44 16 5348 6331 470385432 470384470 0.000000e+00 1415.0
7 TraesCS5B01G400900 chr5D 94.495 109 5 1 6328 6435 470384422 470384314 4.420000e-37 167.0
8 TraesCS5B01G400900 chr5D 100.000 41 0 0 3842 3882 470386914 470386874 7.660000e-10 76.8
9 TraesCS5B01G400900 chr5D 93.333 45 3 0 3794 3838 470386874 470386830 4.610000e-07 67.6
10 TraesCS5B01G400900 chr5A 95.241 1975 75 9 677 2637 591095079 591093110 0.000000e+00 3109.0
11 TraesCS5B01G400900 chr5A 96.215 1453 49 5 3840 5288 591091659 591090209 0.000000e+00 2374.0
12 TraesCS5B01G400900 chr5A 89.964 1116 74 22 5342 6424 591090216 591089106 0.000000e+00 1406.0
13 TraesCS5B01G400900 chr5A 95.430 744 31 3 3097 3838 591092359 591091617 0.000000e+00 1182.0
14 TraesCS5B01G400900 chr5A 92.206 603 37 3 154 755 591095670 591095077 0.000000e+00 845.0
15 TraesCS5B01G400900 chr5A 94.081 321 17 1 2641 2961 591093008 591092690 2.990000e-133 486.0
16 TraesCS5B01G400900 chr5A 92.784 97 2 2 1 97 591095775 591095684 1.250000e-27 135.0
17 TraesCS5B01G400900 chr5A 93.506 77 3 2 2981 3057 591092698 591092624 5.840000e-21 113.0
18 TraesCS5B01G400900 chr6B 81.958 1369 198 28 3853 5202 129273335 129271997 0.000000e+00 1114.0
19 TraesCS5B01G400900 chr6B 95.058 688 29 2 6436 7123 76344919 76345601 0.000000e+00 1077.0
20 TraesCS5B01G400900 chr6B 80.952 609 93 14 1019 1611 129276086 129275485 1.810000e-125 460.0
21 TraesCS5B01G400900 chr6B 76.437 870 149 35 1666 2509 129275371 129274532 3.070000e-113 420.0
22 TraesCS5B01G400900 chr6B 95.631 206 9 0 6436 6641 76349923 76350128 1.480000e-86 331.0
23 TraesCS5B01G400900 chr6B 87.719 57 3 3 5287 5341 274983846 274983792 5.970000e-06 63.9
24 TraesCS5B01G400900 chr6D 81.838 1382 196 35 3853 5211 57220017 57218668 0.000000e+00 1110.0
25 TraesCS5B01G400900 chr6D 76.505 864 144 39 1674 2509 57222001 57221169 3.970000e-112 416.0
26 TraesCS5B01G400900 chr6D 79.512 615 97 17 1019 1611 57222733 57222126 1.850000e-110 411.0
27 TraesCS5B01G400900 chr6D 81.867 375 60 8 3157 3526 57220669 57220298 6.940000e-80 309.0
28 TraesCS5B01G400900 chr6A 81.573 1373 204 30 3853 5206 72434072 72432730 0.000000e+00 1088.0
29 TraesCS5B01G400900 chr6A 86.571 700 70 17 6436 7123 15568654 15567967 0.000000e+00 750.0
30 TraesCS5B01G400900 chr6A 86.448 701 70 19 6436 7123 60506164 60506852 0.000000e+00 745.0
31 TraesCS5B01G400900 chr6A 76.620 864 144 34 1674 2509 72436105 72435272 2.380000e-114 424.0
32 TraesCS5B01G400900 chr6A 79.445 613 99 18 1017 1611 72436813 72436210 6.650000e-110 409.0
33 TraesCS5B01G400900 chr6A 82.045 401 63 8 3148 3541 72434731 72434333 4.120000e-87 333.0
34 TraesCS5B01G400900 chr6A 87.719 57 3 3 5287 5341 431997298 431997352 5.970000e-06 63.9
35 TraesCS5B01G400900 chr1B 94.092 694 30 5 6436 7123 324783824 324784512 0.000000e+00 1044.0
36 TraesCS5B01G400900 chr1B 87.500 56 5 2 5287 5341 573943846 573943792 5.970000e-06 63.9
37 TraesCS5B01G400900 chr1B 86.667 60 4 3 5284 5341 633615960 633616017 5.970000e-06 63.9
38 TraesCS5B01G400900 chr7A 93.050 705 30 5 6430 7122 18074772 18075469 0.000000e+00 1013.0
39 TraesCS5B01G400900 chr7A 92.347 196 13 2 6436 6631 18081458 18081651 1.960000e-70 278.0
40 TraesCS5B01G400900 chr4A 96.220 582 17 2 6543 7123 714576988 714577565 0.000000e+00 948.0
41 TraesCS5B01G400900 chr1A 86.740 724 53 17 6435 7123 580027132 580026417 0.000000e+00 765.0
42 TraesCS5B01G400900 chr1A 86.552 699 73 15 6436 7123 10095252 10094564 0.000000e+00 750.0
43 TraesCS5B01G400900 chr3A 93.089 492 30 1 6632 7123 702168393 702168880 0.000000e+00 717.0
44 TraesCS5B01G400900 chr3A 95.082 61 3 0 5287 5347 83250610 83250550 5.880000e-16 97.1
45 TraesCS5B01G400900 chr7B 82.667 300 36 12 3330 3622 735309891 735309601 1.190000e-62 252.0
46 TraesCS5B01G400900 chr7B 82.828 297 35 12 3330 3619 735805274 735805561 1.190000e-62 252.0
47 TraesCS5B01G400900 chr7B 87.097 62 3 4 5287 5345 361520370 361520429 1.660000e-06 65.8
48 TraesCS5B01G400900 chr2B 81.212 165 31 0 3173 3337 573201698 573201534 4.480000e-27 134.0
49 TraesCS5B01G400900 chr2D 80.606 165 32 0 3173 3337 489640956 489640792 2.090000e-25 128.0
50 TraesCS5B01G400900 chr2D 85.484 62 5 3 5282 5341 576293426 576293485 2.150000e-05 62.1
51 TraesCS5B01G400900 chr2A 80.000 165 33 0 3173 3337 633232067 633231903 9.700000e-24 122.0
52 TraesCS5B01G400900 chr3D 89.231 65 7 0 5283 5347 680349 680285 1.650000e-11 82.4
53 TraesCS5B01G400900 chr4B 87.719 57 3 3 5287 5341 331432297 331432351 5.970000e-06 63.9


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 TraesCS5B01G400900 chr5B 577691994 577699116 7122 True 4428.533333 13154 96.748000 1 7123 3 chr5B.!!$R2 7122
1 TraesCS5B01G400900 chr5D 470384314 470390840 6526 True 1743.733333 4966 95.799833 1 6435 6 chr5D.!!$R1 6434
2 TraesCS5B01G400900 chr5A 591089106 591095775 6669 True 1206.250000 3109 93.678375 1 6424 8 chr5A.!!$R1 6423
3 TraesCS5B01G400900 chr6B 76344919 76345601 682 False 1077.000000 1077 95.058000 6436 7123 1 chr6B.!!$F1 687
4 TraesCS5B01G400900 chr6B 129271997 129276086 4089 True 664.666667 1114 79.782333 1019 5202 3 chr6B.!!$R2 4183
5 TraesCS5B01G400900 chr6D 57218668 57222733 4065 True 561.500000 1110 79.930500 1019 5211 4 chr6D.!!$R1 4192
6 TraesCS5B01G400900 chr6A 15567967 15568654 687 True 750.000000 750 86.571000 6436 7123 1 chr6A.!!$R1 687
7 TraesCS5B01G400900 chr6A 60506164 60506852 688 False 745.000000 745 86.448000 6436 7123 1 chr6A.!!$F1 687
8 TraesCS5B01G400900 chr6A 72432730 72436813 4083 True 563.500000 1088 79.920750 1017 5206 4 chr6A.!!$R2 4189
9 TraesCS5B01G400900 chr1B 324783824 324784512 688 False 1044.000000 1044 94.092000 6436 7123 1 chr1B.!!$F1 687
10 TraesCS5B01G400900 chr7A 18074772 18075469 697 False 1013.000000 1013 93.050000 6430 7122 1 chr7A.!!$F1 692
11 TraesCS5B01G400900 chr4A 714576988 714577565 577 False 948.000000 948 96.220000 6543 7123 1 chr4A.!!$F1 580
12 TraesCS5B01G400900 chr1A 580026417 580027132 715 True 765.000000 765 86.740000 6435 7123 1 chr1A.!!$R2 688
13 TraesCS5B01G400900 chr1A 10094564 10095252 688 True 750.000000 750 86.552000 6436 7123 1 chr1A.!!$R1 687

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
156 161 0.037232 GCTCGTGCAGGTTAGTTCCT 60.037 55.000 6.26 0.00 39.41 3.36 F
912 1020 0.178953 ATTGCCACTGTGCCTTTCCT 60.179 50.000 1.29 0.00 0.00 3.36 F
1073 1187 0.548439 ACCCTTACCCCTGGTGGTAC 60.548 60.000 12.03 0.00 40.55 3.34 F
1538 1662 1.944177 ATGGTCAGACTAGCAGTGGT 58.056 50.000 0.00 0.00 0.00 4.16 F
2363 2569 6.264744 TCCATGGTCGTAACAATTGGTTTTTA 59.735 34.615 12.58 0.00 40.96 1.52 F
3915 4589 1.146358 GGAATTCCTTCGAGTCGCCG 61.146 60.000 17.73 0.52 31.75 6.46 F
5226 5920 0.733150 GCTGCCGGTCACCTTATTTC 59.267 55.000 1.90 0.00 0.00 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1215 1332 1.127567 TGTAAGAGGTGGGTGCAGCT 61.128 55.000 16.65 0.00 35.39 4.24 R
2212 2417 1.400142 CTCCACTGTCTGCGTAGAGAG 59.600 57.143 23.14 23.14 46.74 3.20 R
2219 2424 1.734047 GCTTACTCTCCACTGTCTGCG 60.734 57.143 0.00 0.00 0.00 5.18 R
2853 3263 1.975660 TGAGTTTTACCACCCTGCAC 58.024 50.000 0.00 0.00 0.00 4.57 R
3931 4605 0.804989 GACCCAGAAAATGTGAGGCG 59.195 55.000 0.00 0.00 0.00 5.52 R
5283 5979 0.398098 TTATGGGACGGAGGGAGGAC 60.398 60.000 0.00 0.00 0.00 3.85 R
6203 6930 0.391661 TCGAACAAGAGCAGGCCATC 60.392 55.000 5.01 0.00 0.00 3.51 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
113 118 3.114558 GACTTCAGTCGCTGGTGAG 57.885 57.895 6.95 5.93 35.12 3.51
154 159 3.210857 TGCTCGTGCAGGTTAGTTC 57.789 52.632 8.30 0.00 45.31 3.01
155 160 0.320421 TGCTCGTGCAGGTTAGTTCC 60.320 55.000 8.30 0.00 45.31 3.62
156 161 0.037232 GCTCGTGCAGGTTAGTTCCT 60.037 55.000 6.26 0.00 39.41 3.36
157 162 1.608283 GCTCGTGCAGGTTAGTTCCTT 60.608 52.381 6.26 0.00 39.41 3.36
158 163 2.338500 CTCGTGCAGGTTAGTTCCTTC 58.662 52.381 6.26 0.00 35.37 3.46
159 164 1.068474 CGTGCAGGTTAGTTCCTTCG 58.932 55.000 0.00 0.00 35.37 3.79
174 193 1.136446 CCTTCGTTTCGTTTACGCTGG 60.136 52.381 0.00 0.00 38.81 4.85
200 219 1.268283 CCCTTCCCTGTCTCCAGTCC 61.268 65.000 0.00 0.00 36.95 3.85
204 223 0.471211 TCCCTGTCTCCAGTCCGTTT 60.471 55.000 0.00 0.00 36.95 3.60
206 225 0.679505 CCTGTCTCCAGTCCGTTTCA 59.320 55.000 0.00 0.00 36.95 2.69
255 274 0.597118 CTGCCGACTGATAGCAGCTC 60.597 60.000 8.16 4.34 46.60 4.09
274 293 0.970427 CCTGTTTCCGGGGGAATTGG 60.970 60.000 0.00 0.00 41.71 3.16
339 358 1.447838 GATTGCGTTGGGCTCTCGA 60.448 57.895 5.98 0.00 44.05 4.04
375 394 1.330306 CGTTTGAGATGCTTTTGGCG 58.670 50.000 0.00 0.00 45.43 5.69
419 438 9.013490 GTGTCGATGATGATTCCTTTTATTTTG 57.987 33.333 0.00 0.00 0.00 2.44
471 490 2.575279 AGGAAACTGTGGCATCTGATCT 59.425 45.455 0.00 0.00 41.13 2.75
472 491 2.681848 GGAAACTGTGGCATCTGATCTG 59.318 50.000 0.00 0.00 0.00 2.90
473 492 3.603532 GAAACTGTGGCATCTGATCTGA 58.396 45.455 4.63 4.63 0.00 3.27
474 493 3.928005 AACTGTGGCATCTGATCTGAT 57.072 42.857 9.15 9.15 0.00 2.90
475 494 3.472283 ACTGTGGCATCTGATCTGATC 57.528 47.619 11.82 10.72 0.00 2.92
558 577 3.496884 GTGCTCGTATTGTTCAGTGGAAA 59.503 43.478 0.00 0.00 34.13 3.13
564 583 7.124347 TCGTATTGTTCAGTGGAAATTGTAC 57.876 36.000 0.00 0.00 34.13 2.90
572 591 5.091552 TCAGTGGAAATTGTACTAGAGGGT 58.908 41.667 0.00 0.00 0.00 4.34
602 621 1.488393 AGCTAGAGGAAATGCAGGGAC 59.512 52.381 0.00 0.00 0.00 4.46
665 684 7.606456 AGCCGTGTAATATTAGTCATAAATGGG 59.394 37.037 0.00 0.00 0.00 4.00
705 724 4.594136 GCTTATTTATTTCCGTCGTTGGG 58.406 43.478 0.00 0.00 0.00 4.12
808 905 8.623030 CATTCTTTGAAATTGTTTCCCACATTT 58.377 29.630 0.47 0.00 38.90 2.32
822 927 7.447374 TTCCCACATTTTCAGTATTAGTGTG 57.553 36.000 0.00 0.00 36.24 3.82
830 935 9.897744 CATTTTCAGTATTAGTGTGTTTGATGT 57.102 29.630 0.00 0.00 0.00 3.06
912 1020 0.178953 ATTGCCACTGTGCCTTTCCT 60.179 50.000 1.29 0.00 0.00 3.36
950 1058 3.394606 ACTTCTTGTTTCCCAGCCTTCTA 59.605 43.478 0.00 0.00 0.00 2.10
1073 1187 0.548439 ACCCTTACCCCTGGTGGTAC 60.548 60.000 12.03 0.00 40.55 3.34
1455 1579 3.058639 GCTTACTTTCAAGACTGGTGCTG 60.059 47.826 0.00 0.00 0.00 4.41
1479 1603 7.292319 TGGTGGAATGATCATCTGTAAATGAT 58.708 34.615 9.06 0.00 46.54 2.45
1538 1662 1.944177 ATGGTCAGACTAGCAGTGGT 58.056 50.000 0.00 0.00 0.00 4.16
2176 2381 7.488322 ACATTCGACCTTTCAAAGAAAAATGA 58.512 30.769 15.29 2.15 0.00 2.57
2332 2537 9.715121 AATTTTGGCATATGGTATGATGATTTC 57.285 29.630 4.56 0.00 0.00 2.17
2333 2538 7.836479 TTTGGCATATGGTATGATGATTTCA 57.164 32.000 4.56 0.00 39.12 2.69
2363 2569 6.264744 TCCATGGTCGTAACAATTGGTTTTTA 59.735 34.615 12.58 0.00 40.96 1.52
2364 2570 6.924060 CCATGGTCGTAACAATTGGTTTTTAA 59.076 34.615 10.83 0.00 40.96 1.52
2544 2761 6.599638 GCACTTCTACATAGGAAATTTGGTCT 59.400 38.462 0.00 0.00 0.00 3.85
3373 4028 8.244113 GCAAAAGTTAATATGGTAAGAGCTGTT 58.756 33.333 0.25 0.25 0.00 3.16
3915 4589 1.146358 GGAATTCCTTCGAGTCGCCG 61.146 60.000 17.73 0.52 31.75 6.46
3978 4652 5.069781 ACAGCCTAGTAGAATGGTCAAGATC 59.930 44.000 0.00 0.00 0.00 2.75
4395 5069 1.865340 GAGTCGTCCACAAAGTCCAAC 59.135 52.381 0.00 0.00 0.00 3.77
4491 5165 1.135141 CCTTGCTCTCCTGACTCTTCG 60.135 57.143 0.00 0.00 0.00 3.79
4614 5288 2.415512 TGGAGATATATCGTCGCGTGAG 59.584 50.000 5.77 0.00 0.00 3.51
4788 5480 1.768684 TTGTCTGCCAGGTCCTGTCC 61.769 60.000 17.85 8.76 0.00 4.02
4986 5680 6.575244 TGGGAGAGATTATTTAAGGAGCAA 57.425 37.500 0.00 0.00 0.00 3.91
5025 5719 5.240183 CCAGCTTTGGGATATCTGTTATGTG 59.760 44.000 2.05 0.00 0.00 3.21
5037 5731 9.794685 GATATCTGTTATGTGTCGATCATACAT 57.205 33.333 11.11 10.95 38.48 2.29
5213 5907 3.525537 CCTCAAGGTATATATGCTGCCG 58.474 50.000 0.00 0.00 0.00 5.69
5218 5912 2.233922 AGGTATATATGCTGCCGGTCAC 59.766 50.000 1.90 0.00 0.00 3.67
5226 5920 0.733150 GCTGCCGGTCACCTTATTTC 59.267 55.000 1.90 0.00 0.00 2.17
5227 5921 1.679032 GCTGCCGGTCACCTTATTTCT 60.679 52.381 1.90 0.00 0.00 2.52
5228 5922 2.009774 CTGCCGGTCACCTTATTTCTG 58.990 52.381 1.90 0.00 0.00 3.02
5274 5970 8.089597 GGTTAACTCTAGAAGCAAGAAAGTAGT 58.910 37.037 5.42 0.00 0.00 2.73
5280 5976 7.497595 TCTAGAAGCAAGAAAGTAGTGTTGAA 58.502 34.615 0.00 0.00 0.00 2.69
5281 5977 8.150945 TCTAGAAGCAAGAAAGTAGTGTTGAAT 58.849 33.333 0.00 0.00 0.00 2.57
5282 5978 9.424319 CTAGAAGCAAGAAAGTAGTGTTGAATA 57.576 33.333 0.00 0.00 0.00 1.75
5283 5979 8.316640 AGAAGCAAGAAAGTAGTGTTGAATAG 57.683 34.615 0.00 0.00 0.00 1.73
5284 5980 7.934120 AGAAGCAAGAAAGTAGTGTTGAATAGT 59.066 33.333 0.00 0.00 0.00 2.12
5285 5981 7.659652 AGCAAGAAAGTAGTGTTGAATAGTC 57.340 36.000 0.00 0.00 0.00 2.59
5286 5982 6.651225 AGCAAGAAAGTAGTGTTGAATAGTCC 59.349 38.462 0.00 0.00 0.00 3.85
5287 5983 6.651225 GCAAGAAAGTAGTGTTGAATAGTCCT 59.349 38.462 0.00 0.00 0.00 3.85
5288 5984 7.148557 GCAAGAAAGTAGTGTTGAATAGTCCTC 60.149 40.741 0.00 0.00 0.00 3.71
5289 5985 6.937392 AGAAAGTAGTGTTGAATAGTCCTCC 58.063 40.000 0.00 0.00 0.00 4.30
5290 5986 5.678955 AAGTAGTGTTGAATAGTCCTCCC 57.321 43.478 0.00 0.00 0.00 4.30
5291 5987 4.949121 AGTAGTGTTGAATAGTCCTCCCT 58.051 43.478 0.00 0.00 0.00 4.20
5292 5988 4.957327 AGTAGTGTTGAATAGTCCTCCCTC 59.043 45.833 0.00 0.00 0.00 4.30
5293 5989 3.108376 AGTGTTGAATAGTCCTCCCTCC 58.892 50.000 0.00 0.00 0.00 4.30
5294 5990 2.108168 TGTTGAATAGTCCTCCCTCCG 58.892 52.381 0.00 0.00 0.00 4.63
5295 5991 2.108970 GTTGAATAGTCCTCCCTCCGT 58.891 52.381 0.00 0.00 0.00 4.69
5296 5992 2.068834 TGAATAGTCCTCCCTCCGTC 57.931 55.000 0.00 0.00 0.00 4.79
5297 5993 1.330234 GAATAGTCCTCCCTCCGTCC 58.670 60.000 0.00 0.00 0.00 4.79
5298 5994 0.105607 AATAGTCCTCCCTCCGTCCC 60.106 60.000 0.00 0.00 0.00 4.46
5299 5995 1.294426 ATAGTCCTCCCTCCGTCCCA 61.294 60.000 0.00 0.00 0.00 4.37
5300 5996 1.294426 TAGTCCTCCCTCCGTCCCAT 61.294 60.000 0.00 0.00 0.00 4.00
5301 5997 1.232216 GTCCTCCCTCCGTCCCATA 59.768 63.158 0.00 0.00 0.00 2.74
5302 5998 0.398098 GTCCTCCCTCCGTCCCATAA 60.398 60.000 0.00 0.00 0.00 1.90
5303 5999 0.566176 TCCTCCCTCCGTCCCATAAT 59.434 55.000 0.00 0.00 0.00 1.28
5304 6000 1.790779 TCCTCCCTCCGTCCCATAATA 59.209 52.381 0.00 0.00 0.00 0.98
5305 6001 2.180529 TCCTCCCTCCGTCCCATAATAA 59.819 50.000 0.00 0.00 0.00 1.40
5306 6002 2.567615 CCTCCCTCCGTCCCATAATAAG 59.432 54.545 0.00 0.00 0.00 1.73
5307 6003 3.240302 CTCCCTCCGTCCCATAATAAGT 58.760 50.000 0.00 0.00 0.00 2.24
5308 6004 4.413760 CTCCCTCCGTCCCATAATAAGTA 58.586 47.826 0.00 0.00 0.00 2.24
5309 6005 5.019657 TCCCTCCGTCCCATAATAAGTAT 57.980 43.478 0.00 0.00 0.00 2.12
5310 6006 5.021458 TCCCTCCGTCCCATAATAAGTATC 58.979 45.833 0.00 0.00 0.00 2.24
5311 6007 4.142227 CCCTCCGTCCCATAATAAGTATCG 60.142 50.000 0.00 0.00 0.00 2.92
5312 6008 4.421948 CTCCGTCCCATAATAAGTATCGC 58.578 47.826 0.00 0.00 0.00 4.58
5313 6009 3.827876 TCCGTCCCATAATAAGTATCGCA 59.172 43.478 0.00 0.00 0.00 5.10
5314 6010 4.281435 TCCGTCCCATAATAAGTATCGCAA 59.719 41.667 0.00 0.00 0.00 4.85
5315 6011 4.387862 CCGTCCCATAATAAGTATCGCAAC 59.612 45.833 0.00 0.00 0.00 4.17
5316 6012 5.227908 CGTCCCATAATAAGTATCGCAACT 58.772 41.667 0.00 0.00 0.00 3.16
5317 6013 5.694910 CGTCCCATAATAAGTATCGCAACTT 59.305 40.000 7.29 7.29 42.31 2.66
5318 6014 6.202188 CGTCCCATAATAAGTATCGCAACTTT 59.798 38.462 7.41 0.00 40.20 2.66
5319 6015 7.352739 GTCCCATAATAAGTATCGCAACTTTG 58.647 38.462 7.41 1.37 40.20 2.77
5320 6016 7.012044 GTCCCATAATAAGTATCGCAACTTTGT 59.988 37.037 7.41 0.67 40.20 2.83
5321 6017 8.205512 TCCCATAATAAGTATCGCAACTTTGTA 58.794 33.333 7.41 2.49 40.20 2.41
5322 6018 8.280497 CCCATAATAAGTATCGCAACTTTGTAC 58.720 37.037 7.41 0.00 40.20 2.90
5323 6019 9.042008 CCATAATAAGTATCGCAACTTTGTACT 57.958 33.333 7.41 0.00 40.20 2.73
5327 6023 9.649167 AATAAGTATCGCAACTTTGTACTAACT 57.351 29.630 7.41 0.00 40.20 2.24
5328 6024 7.958053 AAGTATCGCAACTTTGTACTAACTT 57.042 32.000 0.00 0.00 36.26 2.66
5329 6025 7.958053 AGTATCGCAACTTTGTACTAACTTT 57.042 32.000 0.00 0.00 0.00 2.66
5330 6026 9.480053 AAGTATCGCAACTTTGTACTAACTTTA 57.520 29.630 0.00 0.00 36.26 1.85
5331 6027 9.136952 AGTATCGCAACTTTGTACTAACTTTAG 57.863 33.333 0.00 0.00 36.82 1.85
5332 6028 6.219302 TCGCAACTTTGTACTAACTTTAGC 57.781 37.500 0.00 0.00 34.09 3.09
5333 6029 5.754406 TCGCAACTTTGTACTAACTTTAGCA 59.246 36.000 0.00 0.00 34.09 3.49
5334 6030 5.844396 CGCAACTTTGTACTAACTTTAGCAC 59.156 40.000 0.00 0.00 34.09 4.40
5335 6031 6.510478 CGCAACTTTGTACTAACTTTAGCACA 60.510 38.462 0.00 0.00 35.74 4.57
5336 6032 7.190871 GCAACTTTGTACTAACTTTAGCACAA 58.809 34.615 9.74 9.74 42.33 3.33
5337 6033 7.698970 GCAACTTTGTACTAACTTTAGCACAAA 59.301 33.333 19.50 19.50 46.64 2.83
5366 6062 4.773149 ACTACTAGAAAAGAGAGGTGGTGG 59.227 45.833 0.00 0.00 0.00 4.61
5462 6159 4.257536 TGCACATATTTCGTCATGTTCG 57.742 40.909 0.00 0.00 33.12 3.95
5502 6199 4.588528 AGCCATTATTCAACAACCACAACT 59.411 37.500 0.00 0.00 0.00 3.16
5519 6216 7.250569 ACCACAACTTTTTCTATGATTATGCG 58.749 34.615 0.00 0.00 0.00 4.73
5582 6280 4.956700 TCATTCAACAACCACAACCCTTTA 59.043 37.500 0.00 0.00 0.00 1.85
5629 6330 8.651588 GTCATGTTCATACTTCTGTTCTAGTTG 58.348 37.037 0.00 0.00 0.00 3.16
5636 6337 2.672961 TCTGTTCTAGTTGGCCATCG 57.327 50.000 6.09 0.00 0.00 3.84
5753 6455 6.137794 AGTCGTTACTGAATGTCATAGGAG 57.862 41.667 0.00 0.00 33.57 3.69
6203 6930 4.961637 TCCATGCTCCGGACAATG 57.038 55.556 0.00 7.38 0.00 2.82
6204 6931 2.295904 TCCATGCTCCGGACAATGA 58.704 52.632 19.01 11.73 0.00 2.57
6205 6932 0.839277 TCCATGCTCCGGACAATGAT 59.161 50.000 19.01 0.00 0.00 2.45
6207 6934 0.949397 CATGCTCCGGACAATGATGG 59.051 55.000 14.06 0.00 0.00 3.51
6208 6935 0.820891 ATGCTCCGGACAATGATGGC 60.821 55.000 0.00 0.00 0.00 4.40
6229 6957 2.611518 CTGCTCTTGTTCGAGTAAGGG 58.388 52.381 9.86 8.14 33.55 3.95
6242 6970 2.635427 GAGTAAGGGATGGATGGAGGAC 59.365 54.545 0.00 0.00 0.00 3.85
6249 6977 1.068741 GATGGATGGAGGACGGTGTAC 59.931 57.143 0.00 0.00 0.00 2.90
6282 7013 5.722021 TTTTGGGAGAGGTTATGAAAAGC 57.278 39.130 0.00 0.00 0.00 3.51
6283 7014 4.657814 TTGGGAGAGGTTATGAAAAGCT 57.342 40.909 0.00 0.00 0.00 3.74
6287 7018 5.066593 GGGAGAGGTTATGAAAAGCTATGG 58.933 45.833 0.00 0.00 0.00 2.74
6294 7025 8.422577 AGGTTATGAAAAGCTATGGAAAAGTT 57.577 30.769 0.00 0.00 0.00 2.66
6338 7120 4.759693 TGTCTTCGTTCTGCCAAACATATT 59.240 37.500 0.06 0.00 0.00 1.28
6347 7129 3.571590 TGCCAAACATATTACCCATCCC 58.428 45.455 0.00 0.00 0.00 3.85
6391 7174 3.746900 GCATTTGGCATGGACCTTC 57.253 52.632 0.00 0.00 43.97 3.46
6410 7193 7.321745 ACCTTCTGCCTCGAAAATAAATAAG 57.678 36.000 0.00 0.00 0.00 1.73
6423 7206 7.759433 CGAAAATAAATAAGTTTGCATGGACCT 59.241 33.333 0.00 0.00 0.00 3.85
6500 7284 3.545366 TGCGTGTTATATAGCCACCAA 57.455 42.857 8.31 0.00 0.00 3.67
6524 7319 1.705337 CGGCGCACAAGATACAAGGG 61.705 60.000 10.83 0.00 0.00 3.95
6615 7412 7.437267 CCTAACCTATCCTAACAACATACAACG 59.563 40.741 0.00 0.00 0.00 4.10
6710 7550 2.327343 GCTGCCGCACTGACAATGA 61.327 57.895 0.00 0.00 35.78 2.57
6841 7681 0.787787 TCGTCCTCGCATGAAAAACG 59.212 50.000 0.00 0.00 36.96 3.60
6887 7727 2.374184 CAAGGTTGTCACACCAAAGGA 58.626 47.619 6.87 0.00 39.62 3.36
7004 7844 0.176910 TGTGCTTGACCGAGACACAA 59.823 50.000 10.14 0.00 38.24 3.33
7107 7948 0.035152 CAACCTGCCCAGTCTGCATA 60.035 55.000 0.00 0.00 38.22 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 109 3.404083 GGGTTAGGGTTCCTCACCAGC 62.404 61.905 16.42 0.33 46.64 4.85
126 131 3.869272 CACGAGCAATCCAGGCGC 61.869 66.667 0.00 0.00 36.08 6.53
141 146 2.165319 ACGAAGGAACTAACCTGCAC 57.835 50.000 0.00 0.00 38.49 4.57
147 152 5.357889 CGTAAACGAAACGAAGGAACTAAC 58.642 41.667 0.00 0.00 42.90 2.34
148 153 4.085107 GCGTAAACGAAACGAAGGAACTAA 60.085 41.667 6.71 0.00 42.90 2.24
149 154 3.425193 GCGTAAACGAAACGAAGGAACTA 59.575 43.478 6.71 0.00 42.90 2.24
150 155 2.219445 GCGTAAACGAAACGAAGGAACT 59.781 45.455 6.71 0.00 42.90 3.01
151 156 2.219445 AGCGTAAACGAAACGAAGGAAC 59.781 45.455 6.71 0.00 42.90 3.62
152 157 2.219216 CAGCGTAAACGAAACGAAGGAA 59.781 45.455 6.71 0.00 42.90 3.36
153 158 1.788308 CAGCGTAAACGAAACGAAGGA 59.212 47.619 6.71 0.00 42.90 3.36
154 159 1.136446 CCAGCGTAAACGAAACGAAGG 60.136 52.381 6.71 8.62 42.90 3.46
155 160 1.720547 GCCAGCGTAAACGAAACGAAG 60.721 52.381 6.71 4.42 42.90 3.79
156 161 0.232816 GCCAGCGTAAACGAAACGAA 59.767 50.000 6.71 0.00 42.90 3.85
157 162 1.559149 GGCCAGCGTAAACGAAACGA 61.559 55.000 6.71 0.00 42.90 3.85
158 163 1.154543 GGCCAGCGTAAACGAAACG 60.155 57.895 6.71 0.00 43.02 3.60
159 164 1.208358 GGGCCAGCGTAAACGAAAC 59.792 57.895 4.39 0.00 43.02 2.78
174 193 2.936032 ACAGGGAAGGGTCAGGGC 60.936 66.667 0.00 0.00 0.00 5.19
200 219 2.154389 GCAGCAAGCAAAATCTGAAACG 59.846 45.455 0.00 0.00 44.79 3.60
255 274 0.970427 CCAATTCCCCCGGAAACAGG 60.970 60.000 0.73 0.00 45.41 4.00
375 394 1.515736 CCGGCCGAACTCTCGTAAC 60.516 63.158 30.73 0.00 43.87 2.50
419 438 2.436115 GTCACTAAGCACGCCCCC 60.436 66.667 0.00 0.00 0.00 5.40
472 491 3.792053 ATTCGCGCGGGTCAGGATC 62.792 63.158 31.69 0.00 0.00 3.36
473 492 3.849951 ATTCGCGCGGGTCAGGAT 61.850 61.111 31.69 9.71 0.00 3.24
474 493 4.812476 CATTCGCGCGGGTCAGGA 62.812 66.667 31.69 5.26 0.00 3.86
558 577 7.934120 GCTGATTAAATGACCCTCTAGTACAAT 59.066 37.037 0.00 0.00 0.00 2.71
564 583 7.309744 CCTCTAGCTGATTAAATGACCCTCTAG 60.310 44.444 0.00 0.00 0.00 2.43
572 591 7.056006 TGCATTTCCTCTAGCTGATTAAATGA 58.944 34.615 21.37 12.61 38.07 2.57
602 621 4.496341 CGGTCCCAAATTTCGAATCATCAG 60.496 45.833 0.00 0.00 0.00 2.90
696 715 2.666508 CAGTCATTAAGTCCCAACGACG 59.333 50.000 0.00 0.00 46.92 5.12
705 724 9.774742 GTCAATCCAATAAACAGTCATTAAGTC 57.225 33.333 0.00 0.00 0.00 3.01
808 905 8.147704 TCAGACATCAAACACACTAATACTGAA 58.852 33.333 0.00 0.00 0.00 3.02
822 927 5.117584 AGAGCTCATCATCAGACATCAAAC 58.882 41.667 17.77 0.00 0.00 2.93
830 935 6.728089 ATGAAGTAAGAGCTCATCATCAGA 57.272 37.500 17.77 0.00 0.00 3.27
912 1020 5.163301 ACAAGAAGTCAGCCTTAACTCTTGA 60.163 40.000 14.06 0.00 35.96 3.02
950 1058 1.135915 CCTACGATCTGAACTGCAGCT 59.864 52.381 15.27 0.00 44.52 4.24
1215 1332 1.127567 TGTAAGAGGTGGGTGCAGCT 61.128 55.000 16.65 0.00 35.39 4.24
1455 1579 7.756395 ATCATTTACAGATGATCATTCCACC 57.244 36.000 10.14 0.00 41.69 4.61
1479 1603 7.224557 GGCTGCAAAACAAAGATAAGAAAAAGA 59.775 33.333 0.50 0.00 0.00 2.52
1538 1662 6.212589 TCACACCTCTCATGGTAAATGTCTTA 59.787 38.462 0.00 0.00 38.45 2.10
2176 2381 9.822185 AAAGAAACATTACTTCTTTGCTCAATT 57.178 25.926 9.19 0.00 46.40 2.32
2212 2417 1.400142 CTCCACTGTCTGCGTAGAGAG 59.600 57.143 23.14 23.14 46.74 3.20
2219 2424 1.734047 GCTTACTCTCCACTGTCTGCG 60.734 57.143 0.00 0.00 0.00 5.18
2332 2537 2.761559 TGTTACGACCATGGACAACTG 58.238 47.619 21.47 1.69 0.00 3.16
2333 2538 3.478857 TTGTTACGACCATGGACAACT 57.521 42.857 21.47 0.00 0.00 3.16
2363 2569 9.665719 AGGTCAACAAAATTCTACAAACAAATT 57.334 25.926 0.00 0.00 0.00 1.82
2364 2570 9.665719 AAGGTCAACAAAATTCTACAAACAAAT 57.334 25.926 0.00 0.00 0.00 2.32
2853 3263 1.975660 TGAGTTTTACCACCCTGCAC 58.024 50.000 0.00 0.00 0.00 4.57
3073 3503 8.413309 ACATATGGTTCATGCTGCTAATAAAT 57.587 30.769 7.80 0.00 0.00 1.40
3074 3504 7.822161 ACATATGGTTCATGCTGCTAATAAA 57.178 32.000 7.80 0.00 0.00 1.40
3075 3505 7.255555 CCAACATATGGTTCATGCTGCTAATAA 60.256 37.037 7.80 0.00 44.85 1.40
3077 3507 5.010314 CCAACATATGGTTCATGCTGCTAAT 59.990 40.000 7.80 0.00 44.85 1.73
3079 3509 3.884693 CCAACATATGGTTCATGCTGCTA 59.115 43.478 7.80 0.00 44.85 3.49
3080 3510 2.691526 CCAACATATGGTTCATGCTGCT 59.308 45.455 7.80 0.00 44.85 4.24
3081 3511 3.088194 CCAACATATGGTTCATGCTGC 57.912 47.619 7.80 0.00 44.85 5.25
3092 3522 6.016360 TGGTCTGTTTGAAGTTCCAACATATG 60.016 38.462 19.52 10.73 0.00 1.78
3093 3523 6.068010 TGGTCTGTTTGAAGTTCCAACATAT 58.932 36.000 19.52 0.00 0.00 1.78
3095 3525 4.277476 TGGTCTGTTTGAAGTTCCAACAT 58.723 39.130 19.52 0.00 0.00 2.71
3827 4500 7.280876 AGCAGAAGAAATACGCTGATTGATTTA 59.719 33.333 0.00 0.00 0.00 1.40
3838 4511 5.532025 AGTTAACAGCAGAAGAAATACGC 57.468 39.130 8.61 0.00 0.00 4.42
3931 4605 0.804989 GACCCAGAAAATGTGAGGCG 59.195 55.000 0.00 0.00 0.00 5.52
3978 4652 4.994907 TGATTGCCTGATTGAATTCCTG 57.005 40.909 2.27 0.00 0.00 3.86
4419 5093 1.371183 CACGCCCAGTGGAAGAAGA 59.629 57.895 11.95 0.00 46.77 2.87
4491 5165 1.072331 TCTGGCTCCAAAGTTCTGGTC 59.928 52.381 4.63 0.27 37.74 4.02
4788 5480 4.630940 ACCAAAAAGTGAATTTGTGTGCAG 59.369 37.500 0.00 0.00 34.71 4.41
4953 5647 2.100128 ATCTCTCCCATGACTCAGGG 57.900 55.000 2.49 2.49 46.90 4.45
4986 5680 7.639401 CCAAAGCTGGATAATGTGCTGCATT 62.639 44.000 5.27 0.00 46.92 3.56
5025 5719 3.827302 ACTGGGTCCTATGTATGATCGAC 59.173 47.826 0.00 0.00 0.00 4.20
5037 5731 0.685458 GCCGGTAGAACTGGGTCCTA 60.685 60.000 1.90 0.00 44.90 2.94
5213 5907 6.708949 TGTAACAGAACAGAAATAAGGTGACC 59.291 38.462 0.00 0.00 0.00 4.02
5226 5920 5.760253 ACCAACAGAATCTGTAACAGAACAG 59.240 40.000 17.04 1.03 44.62 3.16
5227 5921 5.680619 ACCAACAGAATCTGTAACAGAACA 58.319 37.500 17.04 0.00 44.62 3.18
5228 5922 6.619801 AACCAACAGAATCTGTAACAGAAC 57.380 37.500 17.04 0.00 44.62 3.01
5243 5939 6.223852 TCTTGCTTCTAGAGTTAACCAACAG 58.776 40.000 0.88 0.00 37.10 3.16
5274 5970 2.108168 CGGAGGGAGGACTATTCAACA 58.892 52.381 0.00 0.00 0.00 3.33
5280 5976 1.294426 TGGGACGGAGGGAGGACTAT 61.294 60.000 0.00 0.00 0.00 2.12
5281 5977 1.294426 ATGGGACGGAGGGAGGACTA 61.294 60.000 0.00 0.00 0.00 2.59
5282 5978 1.294426 TATGGGACGGAGGGAGGACT 61.294 60.000 0.00 0.00 0.00 3.85
5283 5979 0.398098 TTATGGGACGGAGGGAGGAC 60.398 60.000 0.00 0.00 0.00 3.85
5284 5980 0.566176 ATTATGGGACGGAGGGAGGA 59.434 55.000 0.00 0.00 0.00 3.71
5285 5981 2.320681 TATTATGGGACGGAGGGAGG 57.679 55.000 0.00 0.00 0.00 4.30
5286 5982 3.240302 ACTTATTATGGGACGGAGGGAG 58.760 50.000 0.00 0.00 0.00 4.30
5287 5983 3.339713 ACTTATTATGGGACGGAGGGA 57.660 47.619 0.00 0.00 0.00 4.20
5288 5984 4.142227 CGATACTTATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
5289 5985 4.677250 GCGATACTTATTATGGGACGGAGG 60.677 50.000 0.00 0.00 0.00 4.30
5290 5986 4.082408 TGCGATACTTATTATGGGACGGAG 60.082 45.833 0.00 0.00 0.00 4.63
5291 5987 3.827876 TGCGATACTTATTATGGGACGGA 59.172 43.478 0.00 0.00 0.00 4.69
5292 5988 4.182693 TGCGATACTTATTATGGGACGG 57.817 45.455 0.00 0.00 0.00 4.79
5293 5989 5.227908 AGTTGCGATACTTATTATGGGACG 58.772 41.667 0.00 0.00 0.00 4.79
5294 5990 7.012044 ACAAAGTTGCGATACTTATTATGGGAC 59.988 37.037 3.45 0.00 37.37 4.46
5295 5991 7.051623 ACAAAGTTGCGATACTTATTATGGGA 58.948 34.615 3.45 0.00 37.37 4.37
5296 5992 7.259290 ACAAAGTTGCGATACTTATTATGGG 57.741 36.000 3.45 0.00 37.37 4.00
5297 5993 9.042008 AGTACAAAGTTGCGATACTTATTATGG 57.958 33.333 0.00 0.00 37.37 2.74
5301 5997 9.649167 AGTTAGTACAAAGTTGCGATACTTATT 57.351 29.630 0.00 0.00 37.37 1.40
5302 5998 9.649167 AAGTTAGTACAAAGTTGCGATACTTAT 57.351 29.630 0.00 0.00 37.37 1.73
5303 5999 9.480053 AAAGTTAGTACAAAGTTGCGATACTTA 57.520 29.630 0.00 0.00 37.37 2.24
5304 6000 7.958053 AAGTTAGTACAAAGTTGCGATACTT 57.042 32.000 0.00 0.00 39.97 2.24
5305 6001 7.958053 AAAGTTAGTACAAAGTTGCGATACT 57.042 32.000 0.00 0.00 0.00 2.12
5306 6002 7.896782 GCTAAAGTTAGTACAAAGTTGCGATAC 59.103 37.037 0.00 0.00 33.32 2.24
5307 6003 7.599621 TGCTAAAGTTAGTACAAAGTTGCGATA 59.400 33.333 0.00 0.00 33.32 2.92
5308 6004 6.425721 TGCTAAAGTTAGTACAAAGTTGCGAT 59.574 34.615 0.00 0.00 33.32 4.58
5309 6005 5.754406 TGCTAAAGTTAGTACAAAGTTGCGA 59.246 36.000 0.00 0.00 33.32 5.10
5310 6006 5.844396 GTGCTAAAGTTAGTACAAAGTTGCG 59.156 40.000 12.67 0.00 43.22 4.85
5337 6033 9.411189 CCACCTCTCTTTTCTAGTAGTATAACT 57.589 37.037 0.00 0.00 0.00 2.24
5338 6034 9.187996 ACCACCTCTCTTTTCTAGTAGTATAAC 57.812 37.037 0.00 0.00 0.00 1.89
5339 6035 9.186837 CACCACCTCTCTTTTCTAGTAGTATAA 57.813 37.037 0.00 0.00 0.00 0.98
5340 6036 7.778853 CCACCACCTCTCTTTTCTAGTAGTATA 59.221 40.741 0.00 0.00 0.00 1.47
5344 6040 4.773149 ACCACCACCTCTCTTTTCTAGTAG 59.227 45.833 0.00 0.00 0.00 2.57
5366 6062 2.032178 GCTCATCGCAATAGGGTTTCAC 59.968 50.000 0.00 0.00 38.92 3.18
5377 6073 4.694982 TGAAATGACTAAAGCTCATCGCAA 59.305 37.500 0.00 0.00 42.61 4.85
5502 6199 7.587392 CGAAATCTGCGCATAATCATAGAAAAA 59.413 33.333 12.24 0.00 0.00 1.94
5519 6216 5.725110 AGTATGAACATGACGAAATCTGC 57.275 39.130 0.00 0.00 0.00 4.26
5582 6280 5.011023 TGACGACATATGTGCCTAATCAGAT 59.989 40.000 14.43 0.00 0.00 2.90
5647 6348 7.646548 TGACTGATGTCTAAGCTACAACTAT 57.353 36.000 0.00 0.00 43.29 2.12
5648 6349 7.462571 TTGACTGATGTCTAAGCTACAACTA 57.537 36.000 0.00 0.00 43.29 2.24
5657 6359 7.095313 GGATGTGCATATTGACTGATGTCTAAG 60.095 40.741 0.00 0.00 43.29 2.18
5662 6364 5.045012 AGGATGTGCATATTGACTGATGT 57.955 39.130 0.00 0.00 0.00 3.06
5771 6498 3.132139 AGCGCCTTCATGCTGCAG 61.132 61.111 10.11 10.11 40.62 4.41
5780 6507 1.807573 CTCGTTCCTCAGCGCCTTC 60.808 63.158 2.29 0.00 0.00 3.46
5879 6606 4.441695 CGCTGCTTCGCCTCCAGA 62.442 66.667 0.00 0.00 0.00 3.86
6158 6885 4.478371 CCTACGCCCGTTTCCCCC 62.478 72.222 0.00 0.00 0.00 5.40
6201 6928 1.760192 GAACAAGAGCAGGCCATCAT 58.240 50.000 5.01 0.00 0.00 2.45
6202 6929 0.674581 CGAACAAGAGCAGGCCATCA 60.675 55.000 5.01 0.00 0.00 3.07
6203 6930 0.391661 TCGAACAAGAGCAGGCCATC 60.392 55.000 5.01 0.00 0.00 3.51
6204 6931 0.392193 CTCGAACAAGAGCAGGCCAT 60.392 55.000 5.01 0.00 0.00 4.40
6205 6932 1.004560 CTCGAACAAGAGCAGGCCA 60.005 57.895 5.01 0.00 0.00 5.36
6207 6934 1.996191 CTTACTCGAACAAGAGCAGGC 59.004 52.381 0.37 0.00 41.77 4.85
6208 6935 2.611518 CCTTACTCGAACAAGAGCAGG 58.388 52.381 7.14 0.00 41.77 4.85
6229 6957 1.068741 GTACACCGTCCTCCATCCATC 59.931 57.143 0.00 0.00 0.00 3.51
6263 6994 5.397899 CCATAGCTTTTCATAACCTCTCCCA 60.398 44.000 0.00 0.00 0.00 4.37
6276 7007 9.868389 CAAATGAAAACTTTTCCATAGCTTTTC 57.132 29.630 11.03 0.00 0.00 2.29
6282 7013 7.273381 CGTAGCCAAATGAAAACTTTTCCATAG 59.727 37.037 11.03 0.94 0.00 2.23
6283 7014 7.087639 CGTAGCCAAATGAAAACTTTTCCATA 58.912 34.615 11.03 0.00 0.00 2.74
6287 7018 6.206498 AGACGTAGCCAAATGAAAACTTTTC 58.794 36.000 7.24 7.24 0.00 2.29
6294 7025 4.245660 CAGAGAGACGTAGCCAAATGAAA 58.754 43.478 0.00 0.00 0.00 2.69
6338 7120 3.936203 GATGCGGCGGGATGGGTA 61.936 66.667 9.78 0.00 0.00 3.69
6391 7174 6.806249 TGCAAACTTATTTATTTTCGAGGCAG 59.194 34.615 0.00 0.00 0.00 4.85
6410 7193 4.627035 GCTGATAAAAAGGTCCATGCAAAC 59.373 41.667 0.00 0.00 0.00 2.93
6423 7206 5.708230 ACCTATTTCCACACGCTGATAAAAA 59.292 36.000 0.00 0.00 0.00 1.94
6500 7284 1.376683 TATCTTGTGCGCCGCCTTT 60.377 52.632 6.63 0.00 0.00 3.11
6524 7319 3.054139 CCACCTAACCTAAACCCTAACCC 60.054 52.174 0.00 0.00 0.00 4.11
6615 7412 6.524933 TGTTAAACATGTTGTATATTGCGTGC 59.475 34.615 12.82 0.00 0.00 5.34
6841 7681 1.840635 ACTTACCTCTCTGCCAATCCC 59.159 52.381 0.00 0.00 0.00 3.85
6887 7727 2.639327 GCCATTCACCTGCGGCTTT 61.639 57.895 0.00 0.00 41.50 3.51


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

AutoCloner maintained by Alex Coulton.