Multiple sequence alignment - TraesCS3B01G471800

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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 TraesCS3B01G471800 chr3B 100.000 5679 0 0 1 5679 720251416 720257094 0.000000e+00 10488.0
1 TraesCS3B01G471800 chr3B 86.096 187 26 0 572 758 617411871 617412057 9.650000e-48 202.0
2 TraesCS3B01G471800 chr3A 93.402 4001 136 50 780 4737 681385516 681389431 0.000000e+00 5808.0
3 TraesCS3B01G471800 chr3A 91.205 614 46 5 152 762 681384812 681385420 0.000000e+00 828.0
4 TraesCS3B01G471800 chr3A 78.797 316 53 6 4985 5289 681389713 681390025 3.470000e-47 200.0
5 TraesCS3B01G471800 chr3A 76.338 355 70 8 4979 5321 362336631 362336983 1.630000e-40 178.0
6 TraesCS3B01G471800 chr3D 93.726 3953 117 65 790 4706 544411841 544415698 0.000000e+00 5805.0
7 TraesCS3B01G471800 chr3D 88.428 579 52 11 1 574 544411236 544411804 0.000000e+00 684.0
8 TraesCS3B01G471800 chr3D 84.831 712 58 32 4983 5679 544417892 544418568 0.000000e+00 671.0
9 TraesCS3B01G471800 chr1B 88.026 760 70 10 1236 1990 1891878 1891135 0.000000e+00 880.0
10 TraesCS3B01G471800 chr1B 90.260 154 15 0 2543 2696 1891141 1890988 9.650000e-48 202.0
11 TraesCS3B01G471800 chr1B 93.182 88 6 0 2683 2770 1882539 1882452 4.620000e-26 130.0
12 TraesCS3B01G471800 chr4B 87.654 567 49 8 1820 2372 526962958 526962399 1.730000e-179 640.0
13 TraesCS3B01G471800 chr4B 90.885 373 26 6 1366 1738 10622590 10622226 1.420000e-135 494.0
14 TraesCS3B01G471800 chr4B 90.349 373 28 6 1366 1738 565111325 565111689 3.080000e-132 483.0
15 TraesCS3B01G471800 chr7B 88.716 514 47 8 1480 1989 728084736 728085242 8.080000e-173 617.0
16 TraesCS3B01G471800 chr7B 90.885 373 26 6 1366 1738 613376003 613375639 1.420000e-135 494.0
17 TraesCS3B01G471800 chr7B 90.617 373 27 6 1366 1738 709128315 709128679 6.610000e-134 488.0
18 TraesCS3B01G471800 chr7B 92.982 228 16 0 2543 2770 728085238 728085465 3.280000e-87 333.0
19 TraesCS3B01G471800 chr7B 95.690 116 5 0 1236 1351 728084624 728084739 2.700000e-43 187.0
20 TraesCS3B01G471800 chr2B 91.281 367 24 7 1372 1738 29006471 29006113 1.420000e-135 494.0
21 TraesCS3B01G471800 chr2B 73.818 275 52 14 135 403 587724437 587724177 2.180000e-14 91.6
22 TraesCS3B01G471800 chr6B 89.276 373 32 6 1366 1738 387720469 387720105 1.440000e-125 460.0
23 TraesCS3B01G471800 chr5D 86.730 422 44 7 1687 2099 52905552 52905134 5.190000e-125 459.0
24 TraesCS3B01G471800 chr5D 85.492 193 25 2 572 764 332918881 332918692 1.250000e-46 198.0
25 TraesCS3B01G471800 chr5D 83.663 202 28 4 566 764 440780835 440780636 9.720000e-43 185.0
26 TraesCS3B01G471800 chr6A 87.363 182 21 2 584 764 584518726 584518546 2.070000e-49 207.0
27 TraesCS3B01G471800 chr4D 85.787 197 26 2 568 764 39400877 39400683 2.070000e-49 207.0
28 TraesCS3B01G471800 chr4D 85.492 193 27 1 572 764 335353282 335353091 3.470000e-47 200.0
29 TraesCS3B01G471800 chr7A 85.492 193 27 1 572 764 610367209 610367018 3.470000e-47 200.0
30 TraesCS3B01G471800 chr7D 85.263 190 26 2 571 759 616168671 616168859 1.610000e-45 195.0
31 TraesCS3B01G471800 chr7D 83.761 117 15 4 135 249 601919490 601919604 2.160000e-19 108.0
32 TraesCS3B01G471800 chr6D 77.922 308 41 17 5215 5517 466926512 466926227 3.520000e-37 167.0


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 TraesCS3B01G471800 chr3B 720251416 720257094 5678 False 10488.000000 10488 100.000000 1 5679 1 chr3B.!!$F2 5678
1 TraesCS3B01G471800 chr3A 681384812 681390025 5213 False 2278.666667 5808 87.801333 152 5289 3 chr3A.!!$F2 5137
2 TraesCS3B01G471800 chr3D 544411236 544418568 7332 False 2386.666667 5805 88.995000 1 5679 3 chr3D.!!$F1 5678
3 TraesCS3B01G471800 chr1B 1890988 1891878 890 True 541.000000 880 89.143000 1236 2696 2 chr1B.!!$R2 1460
4 TraesCS3B01G471800 chr4B 526962399 526962958 559 True 640.000000 640 87.654000 1820 2372 1 chr4B.!!$R2 552
5 TraesCS3B01G471800 chr7B 728084624 728085465 841 False 379.000000 617 92.462667 1236 2770 3 chr7B.!!$F2 1534

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
806 889 0.828762 AGCCAATGTGGAAAGCAGCA 60.829 50.0 0.00 0.0 40.96 4.41 F
1066 1176 0.601311 GTCAGCCAGAGACCACACAC 60.601 60.0 0.00 0.0 0.00 3.82 F
2173 2339 0.536006 AGCTGACTGGCTTGGTGAAC 60.536 55.0 0.00 0.0 39.86 3.18 F
3653 3821 0.908198 AACCTGCAGTCTCTGATCCC 59.092 55.0 13.81 0.0 32.44 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1671 1792 0.960861 GGCTGGAAGAAAGAACCGGG 60.961 60.0 6.32 0.0 34.07 5.73 R
2985 3153 0.869880 CGAACGCCAGCGACATGATA 60.870 55.0 20.32 0.0 42.83 2.15 R
4029 4197 0.389556 CATCGGCATCATCCTCCTCG 60.390 60.0 0.00 0.0 0.00 4.63 R
5448 7578 0.250166 AACCCTTGAAGTTCCGGACG 60.250 55.0 1.83 0.0 0.00 4.79 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
26 27 8.958119 TTATGTTCCTACTAGTTGCCTAAATG 57.042 34.615 0.00 0.00 0.00 2.32
123 125 5.759763 GCCAAAGACTCCATTGTTTTTCATT 59.240 36.000 0.00 0.00 0.00 2.57
125 127 7.201723 GCCAAAGACTCCATTGTTTTTCATTTT 60.202 33.333 0.00 0.00 0.00 1.82
126 128 8.676401 CCAAAGACTCCATTGTTTTTCATTTTT 58.324 29.630 0.00 0.00 0.00 1.94
205 207 9.973450 GAGATACAATCATAATGAGTACACACT 57.027 33.333 0.00 0.00 37.87 3.55
226 228 4.830046 ACTCGGACTCTGCATAACTATGAT 59.170 41.667 0.77 0.00 35.75 2.45
234 236 7.730084 ACTCTGCATAACTATGATACACACAT 58.270 34.615 0.77 0.00 35.75 3.21
260 262 2.225255 CACAACACACTCACACACACAA 59.775 45.455 0.00 0.00 0.00 3.33
262 264 3.233578 CAACACACTCACACACACAAAC 58.766 45.455 0.00 0.00 0.00 2.93
271 275 2.406691 CACACACACAAACACAAAACGG 59.593 45.455 0.00 0.00 0.00 4.44
275 279 4.859798 CACACACAAACACAAAACGGTAAT 59.140 37.500 0.00 0.00 0.00 1.89
276 280 4.859798 ACACACAAACACAAAACGGTAATG 59.140 37.500 0.00 0.00 0.00 1.90
278 282 3.244111 CACAAACACAAAACGGTAATGCC 59.756 43.478 0.00 0.00 0.00 4.40
298 302 3.016736 CCGACAAAGGGCAAAGTCATAT 58.983 45.455 0.00 0.00 0.00 1.78
306 310 5.450818 AGGGCAAAGTCATATAAGACCAA 57.549 39.130 4.52 0.00 39.34 3.67
310 314 6.405842 GGGCAAAGTCATATAAGACCAAAAGG 60.406 42.308 4.52 0.00 39.34 3.11
339 343 3.067601 GGCGGAGGAAGAAGAAAAACAAA 59.932 43.478 0.00 0.00 0.00 2.83
347 351 7.386059 AGGAAGAAGAAAAACAAAGAAGCAAA 58.614 30.769 0.00 0.00 0.00 3.68
384 388 5.523552 TGACAATATAAAGCAGTGACCATCG 59.476 40.000 0.00 0.00 0.00 3.84
448 452 7.706281 TGACAACGCATTAAACATTTTCATT 57.294 28.000 0.00 0.00 0.00 2.57
596 600 7.334844 ACTCCCTTTGTTTCTTTTTAGTCTG 57.665 36.000 0.00 0.00 0.00 3.51
601 605 8.306761 CCCTTTGTTTCTTTTTAGTCTGCATAT 58.693 33.333 0.00 0.00 0.00 1.78
632 636 5.124776 TGGTCAAAGTCAAACTACACAAAGG 59.875 40.000 0.00 0.00 0.00 3.11
633 637 5.034797 GTCAAAGTCAAACTACACAAAGGC 58.965 41.667 0.00 0.00 0.00 4.35
648 652 7.414222 ACACAAAGGCTGATCAAATTCATAT 57.586 32.000 0.00 0.00 0.00 1.78
653 657 6.896021 AGGCTGATCAAATTCATATCAAGG 57.104 37.500 0.00 0.00 0.00 3.61
787 870 7.403312 TTTATATGCAGGCTAAAAAGAAGCA 57.597 32.000 0.00 0.00 41.93 3.91
806 889 0.828762 AGCCAATGTGGAAAGCAGCA 60.829 50.000 0.00 0.00 40.96 4.41
847 931 2.125350 CTCCTTGGCCTCGCACTC 60.125 66.667 3.32 0.00 0.00 3.51
848 932 2.604686 TCCTTGGCCTCGCACTCT 60.605 61.111 3.32 0.00 0.00 3.24
849 933 2.435586 CCTTGGCCTCGCACTCTG 60.436 66.667 3.32 0.00 0.00 3.35
850 934 3.123620 CTTGGCCTCGCACTCTGC 61.124 66.667 3.32 0.00 40.69 4.26
851 935 3.889134 CTTGGCCTCGCACTCTGCA 62.889 63.158 3.32 0.00 45.36 4.41
874 970 1.751927 CCCAACCATCTCAGCTGCC 60.752 63.158 9.47 0.00 0.00 4.85
1006 1110 2.983879 ATCCAAGCCCAGAACCCCG 61.984 63.158 0.00 0.00 0.00 5.73
1038 1148 2.669849 CTTGCTCTGGCTCAGGCT 59.330 61.111 0.00 0.00 39.59 4.58
1066 1176 0.601311 GTCAGCCAGAGACCACACAC 60.601 60.000 0.00 0.00 0.00 3.82
1077 1189 3.771491 CACACACAGAGCGAGCGC 61.771 66.667 6.78 6.78 42.33 5.92
1358 1471 4.070552 GACTTCCTCCACCGCGCT 62.071 66.667 5.56 0.00 0.00 5.92
1671 1792 3.870633 ACTTCTGTATGTTCGTCCTCC 57.129 47.619 0.00 0.00 0.00 4.30
1771 1913 5.432885 ACGAACCTATTTGTTTGTTCTGG 57.567 39.130 0.00 0.00 39.31 3.86
1785 1927 3.766545 TGTTCTGGGATTTCTTCCTTGG 58.233 45.455 0.00 0.00 44.75 3.61
1798 1940 4.326826 TCTTCCTTGGTTATTCTGCTGTG 58.673 43.478 0.00 0.00 0.00 3.66
1807 1949 6.919721 TGGTTATTCTGCTGTGTTTTTATCC 58.080 36.000 0.00 0.00 0.00 2.59
1833 1975 4.152402 GTCTTGTTCTGCGAGCAAAGATTA 59.848 41.667 11.54 0.00 32.85 1.75
1875 2017 8.655092 CAGCTTACAGAATTTTACTCTCTGAAG 58.345 37.037 5.37 5.96 39.15 3.02
1882 2030 9.212641 CAGAATTTTACTCTCTGAAGATGACAA 57.787 33.333 0.00 0.00 39.15 3.18
1891 2039 3.625313 TCTGAAGATGACAACAAACGCAA 59.375 39.130 0.00 0.00 0.00 4.85
2101 2257 3.276882 GCTGCAGCTAGCTACTAGTAC 57.723 52.381 31.33 0.00 45.94 2.73
2120 2276 8.309656 ACTAGTACCAGTTAACGAGCTTTAATT 58.690 33.333 0.00 0.00 0.00 1.40
2129 2285 9.158233 AGTTAACGAGCTTTAATTACTGCATTA 57.842 29.630 0.00 0.00 0.00 1.90
2173 2339 0.536006 AGCTGACTGGCTTGGTGAAC 60.536 55.000 0.00 0.00 39.86 3.18
2179 2345 0.954452 CTGGCTTGGTGAACTTGGAC 59.046 55.000 0.00 0.00 0.00 4.02
2256 2424 2.569134 GAGCAGCTCCTCGACGTT 59.431 61.111 11.84 0.00 0.00 3.99
2745 2913 1.295423 GCTTAGCCCGGAGAACACA 59.705 57.895 0.73 0.00 0.00 3.72
3030 3198 2.425592 CCGCACCACCTCAAGTCA 59.574 61.111 0.00 0.00 0.00 3.41
3048 3216 1.824852 TCATGCTTCCTCTACTTCGCA 59.175 47.619 0.00 0.00 0.00 5.10
3057 3225 1.519234 CTACTTCGCAGCGATGCCA 60.519 57.895 26.04 3.78 35.23 4.92
3653 3821 0.908198 AACCTGCAGTCTCTGATCCC 59.092 55.000 13.81 0.00 32.44 3.85
4029 4197 4.447342 CTGGTGGGGGCCATGGAC 62.447 72.222 18.40 14.40 37.96 4.02
4539 4712 1.152271 TCAAGGAAGGAGAAGGAGGGT 59.848 52.381 0.00 0.00 0.00 4.34
4540 4713 2.385765 TCAAGGAAGGAGAAGGAGGGTA 59.614 50.000 0.00 0.00 0.00 3.69
4541 4714 3.014110 TCAAGGAAGGAGAAGGAGGGTAT 59.986 47.826 0.00 0.00 0.00 2.73
4542 4715 4.234458 TCAAGGAAGGAGAAGGAGGGTATA 59.766 45.833 0.00 0.00 0.00 1.47
4543 4716 4.920781 AGGAAGGAGAAGGAGGGTATAA 57.079 45.455 0.00 0.00 0.00 0.98
4544 4717 4.821940 AGGAAGGAGAAGGAGGGTATAAG 58.178 47.826 0.00 0.00 0.00 1.73
4545 4718 3.904965 GGAAGGAGAAGGAGGGTATAAGG 59.095 52.174 0.00 0.00 0.00 2.69
4587 4767 4.033009 TCCATGAGCCTTCTTCTGTATCA 58.967 43.478 0.00 0.00 0.00 2.15
4664 4844 3.461946 CGAAAGCCTCTGCAGTTTTAG 57.538 47.619 14.67 3.14 41.13 1.85
4706 4886 0.103208 CTATGGCTCCGACACTGGTC 59.897 60.000 0.00 0.00 40.77 4.02
4709 4889 2.048127 GCTCCGACACTGGTCACC 60.048 66.667 0.00 0.00 44.54 4.02
4710 4890 2.867855 GCTCCGACACTGGTCACCA 61.868 63.158 0.00 0.00 44.54 4.17
4772 6805 8.885494 AAATAGCAAAACATTTTAAGCTGTGA 57.115 26.923 10.57 0.00 33.31 3.58
4774 6807 9.492973 AATAGCAAAACATTTTAAGCTGTGATT 57.507 25.926 10.57 2.91 33.31 2.57
4790 6823 5.652452 GCTGTGATTAGGTTTTTCTATGGGT 59.348 40.000 0.00 0.00 0.00 4.51
4807 6840 4.668138 TGGGTAGGGTTGCTAATTTCTT 57.332 40.909 0.00 0.00 0.00 2.52
4831 6864 2.237392 AGCATCTACAACAAGACCCCTC 59.763 50.000 0.00 0.00 0.00 4.30
4832 6865 2.237392 GCATCTACAACAAGACCCCTCT 59.763 50.000 0.00 0.00 0.00 3.69
4833 6866 3.451178 GCATCTACAACAAGACCCCTCTA 59.549 47.826 0.00 0.00 0.00 2.43
4835 6868 3.438183 TCTACAACAAGACCCCTCTACC 58.562 50.000 0.00 0.00 0.00 3.18
4837 6870 0.249398 CAACAAGACCCCTCTACCCG 59.751 60.000 0.00 0.00 0.00 5.28
4838 6871 1.551019 AACAAGACCCCTCTACCCGC 61.551 60.000 0.00 0.00 0.00 6.13
4839 6872 1.987855 CAAGACCCCTCTACCCGCA 60.988 63.158 0.00 0.00 0.00 5.69
4848 6881 0.608640 CTCTACCCGCACCAAACTCT 59.391 55.000 0.00 0.00 0.00 3.24
4859 6892 2.037136 CAAACTCTCGGGCAGCCTG 61.037 63.158 15.05 15.05 0.00 4.85
4870 6903 2.262915 CAGCCTGTCCGGTCACTC 59.737 66.667 0.00 0.00 34.25 3.51
4938 6971 1.267574 ATGTCCAGACTGACCGGCAT 61.268 55.000 0.00 0.00 34.25 4.40
4939 6972 0.613572 TGTCCAGACTGACCGGCATA 60.614 55.000 0.00 0.00 34.25 3.14
4960 7079 2.305928 CCGCCAATTTGTCCATATCCA 58.694 47.619 0.00 0.00 0.00 3.41
4970 7089 1.002134 CCATATCCATCCCCGCCAC 60.002 63.158 0.00 0.00 0.00 5.01
4973 7092 2.713111 ATATCCATCCCCGCCACCCT 62.713 60.000 0.00 0.00 0.00 4.34
5004 7123 1.630369 CCCCTCTCATTGTCTGACCAA 59.370 52.381 5.17 0.52 0.00 3.67
5042 7161 4.681978 GGCCTCGTCCGCACAACT 62.682 66.667 0.00 0.00 0.00 3.16
5044 7163 3.414700 CCTCGTCCGCACAACTGC 61.415 66.667 0.00 0.00 40.38 4.40
5045 7164 2.356313 CTCGTCCGCACAACTGCT 60.356 61.111 0.00 0.00 41.77 4.24
5046 7165 2.661537 TCGTCCGCACAACTGCTG 60.662 61.111 0.00 0.00 41.77 4.41
5047 7166 3.716006 CGTCCGCACAACTGCTGG 61.716 66.667 0.00 0.00 41.77 4.85
5066 7185 2.505498 CGGAGTTTCGCCGTCATCG 61.505 63.158 3.94 0.00 41.64 3.84
5127 7246 4.920112 CCCGAACACACACCGCCA 62.920 66.667 0.00 0.00 0.00 5.69
5143 7262 3.107661 CACCGACCGTGCCGTAAC 61.108 66.667 0.00 0.00 35.18 2.50
5156 7275 3.591979 CGTAACCGGTCAAGGTCAA 57.408 52.632 8.04 0.00 45.21 3.18
5161 7280 3.411351 CGGTCAAGGTCAACGCCG 61.411 66.667 0.00 0.00 0.00 6.46
5164 7283 3.936203 TCAAGGTCAACGCCGCCT 61.936 61.111 0.00 0.00 0.00 5.52
5165 7284 3.423154 CAAGGTCAACGCCGCCTC 61.423 66.667 0.00 0.00 0.00 4.70
5198 7327 6.016192 CCAACTCACTCATATATACACCTCGT 60.016 42.308 0.00 0.00 0.00 4.18
5205 7334 7.066404 CACTCATATATACACCTCGTGCTCTAT 59.934 40.741 0.00 0.00 36.98 1.98
5209 7338 0.108615 ACACCTCGTGCTCTATGTGC 60.109 55.000 0.00 0.00 36.98 4.57
5211 7340 0.457851 ACCTCGTGCTCTATGTGCTC 59.542 55.000 0.00 0.00 0.00 4.26
5212 7341 0.249238 CCTCGTGCTCTATGTGCTCC 60.249 60.000 0.00 0.00 0.00 4.70
5222 7351 5.059161 GCTCTATGTGCTCCATGAAATGTA 58.941 41.667 0.00 0.00 44.81 2.29
5275 7404 9.615660 ATTACTTCTATGTAACCTATGGATCCA 57.384 33.333 18.88 18.88 35.56 3.41
5281 7410 6.957853 ATGTAACCTATGGATCCATCATGA 57.042 37.500 30.61 12.53 37.82 3.07
5313 7442 0.605589 GGAAACCCTGACCTTCACGG 60.606 60.000 0.00 0.00 39.35 4.94
5325 7454 5.116180 TGACCTTCACGGATTCATATTCAC 58.884 41.667 0.00 0.00 36.31 3.18
5326 7455 5.097742 ACCTTCACGGATTCATATTCACA 57.902 39.130 0.00 0.00 36.31 3.58
5334 7464 7.336679 TCACGGATTCATATTCACAAGTTCATT 59.663 33.333 0.00 0.00 0.00 2.57
5340 7470 5.945191 TCATATTCACAAGTTCATTGCCTCA 59.055 36.000 0.00 0.00 43.15 3.86
5350 7480 0.870393 CATTGCCTCATCGGATTCGG 59.130 55.000 0.00 0.00 36.95 4.30
5352 7482 0.179084 TTGCCTCATCGGATTCGGAC 60.179 55.000 0.00 0.37 36.95 4.79
5386 7516 9.959721 ATACTGAAATGATGATGATGATGATGA 57.040 29.630 0.00 0.00 0.00 2.92
5387 7517 8.870075 ACTGAAATGATGATGATGATGATGAT 57.130 30.769 0.00 0.00 0.00 2.45
5388 7518 8.734386 ACTGAAATGATGATGATGATGATGATG 58.266 33.333 0.00 0.00 0.00 3.07
5389 7519 8.862325 TGAAATGATGATGATGATGATGATGA 57.138 30.769 0.00 0.00 0.00 2.92
5390 7520 9.466497 TGAAATGATGATGATGATGATGATGAT 57.534 29.630 0.00 0.00 0.00 2.45
5391 7521 9.727627 GAAATGATGATGATGATGATGATGATG 57.272 33.333 0.00 0.00 0.00 3.07
5392 7522 9.466497 AAATGATGATGATGATGATGATGATGA 57.534 29.630 0.00 0.00 0.00 2.92
5393 7523 9.638176 AATGATGATGATGATGATGATGATGAT 57.362 29.630 0.00 0.00 0.00 2.45
5394 7524 8.442632 TGATGATGATGATGATGATGATGATG 57.557 34.615 0.00 0.00 0.00 3.07
5395 7525 8.267183 TGATGATGATGATGATGATGATGATGA 58.733 33.333 0.00 0.00 0.00 2.92
5396 7526 9.282569 GATGATGATGATGATGATGATGATGAT 57.717 33.333 0.00 0.00 0.00 2.45
5397 7527 8.442632 TGATGATGATGATGATGATGATGATG 57.557 34.615 0.00 0.00 0.00 3.07
5398 7528 8.267183 TGATGATGATGATGATGATGATGATGA 58.733 33.333 0.00 0.00 0.00 2.92
5399 7529 9.282569 GATGATGATGATGATGATGATGATGAT 57.717 33.333 0.00 0.00 0.00 2.45
5400 7530 8.442632 TGATGATGATGATGATGATGATGATG 57.557 34.615 0.00 0.00 0.00 3.07
5401 7531 8.267183 TGATGATGATGATGATGATGATGATGA 58.733 33.333 0.00 0.00 0.00 2.92
5402 7532 9.282569 GATGATGATGATGATGATGATGATGAT 57.717 33.333 0.00 0.00 0.00 2.45
5403 7533 8.442632 TGATGATGATGATGATGATGATGATG 57.557 34.615 0.00 0.00 0.00 3.07
5404 7534 8.267183 TGATGATGATGATGATGATGATGATGA 58.733 33.333 0.00 0.00 0.00 2.92
5405 7535 9.282569 GATGATGATGATGATGATGATGATGAT 57.717 33.333 0.00 0.00 0.00 2.45
5406 7536 8.442632 TGATGATGATGATGATGATGATGATG 57.557 34.615 0.00 0.00 0.00 3.07
5407 7537 8.267183 TGATGATGATGATGATGATGATGATGA 58.733 33.333 0.00 0.00 0.00 2.92
5408 7538 9.282569 GATGATGATGATGATGATGATGATGAT 57.717 33.333 0.00 0.00 0.00 2.45
5409 7539 8.442632 TGATGATGATGATGATGATGATGATG 57.557 34.615 0.00 0.00 0.00 3.07
5416 7546 4.870426 TGATGATGATGATGATGATGAGCG 59.130 41.667 0.00 0.00 0.00 5.03
5468 7598 1.812708 CGTCCGGAACTTCAAGGGTTT 60.813 52.381 5.23 0.00 0.00 3.27
5470 7600 1.491332 TCCGGAACTTCAAGGGTTTCA 59.509 47.619 0.00 0.00 0.00 2.69
5477 7607 5.047306 GGAACTTCAAGGGTTTCATAAAGGG 60.047 44.000 0.00 0.00 0.00 3.95
5515 7646 2.714250 TGGATAGGGTTTTGTGACACCT 59.286 45.455 2.45 0.00 33.09 4.00
5517 7648 3.506067 GGATAGGGTTTTGTGACACCTTG 59.494 47.826 2.45 0.00 33.09 3.61
5559 7690 5.835113 TTCCTTTCTTGTTTTGTCTCCTG 57.165 39.130 0.00 0.00 0.00 3.86
5597 7729 6.202570 GGTGTTCTTGCTTTTTATTTGCATCA 59.797 34.615 0.00 0.00 36.55 3.07
5605 7737 7.928103 TGCTTTTTATTTGCATCATGTGTTTT 58.072 26.923 0.00 0.00 0.00 2.43
5621 7753 8.367911 TCATGTGTTTTATTCAGAGTAGTGACT 58.632 33.333 0.00 0.00 39.20 3.41
5634 7766 5.185442 AGAGTAGTGACTTTGCCTAGTTACC 59.815 44.000 0.00 0.00 35.80 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 4.000988 GAGTCTCCGAAACATTTAGGCAA 58.999 43.478 0.00 0.00 33.56 4.52
26 27 6.969828 AATTTATGTGAGAGTCTCCGAAAC 57.030 37.500 17.57 9.29 0.00 2.78
59 61 9.822727 TCCTGGTATTGATTATAGTATGACTGA 57.177 33.333 0.00 0.00 0.00 3.41
92 94 3.719268 ATGGAGTCTTTGGCATGTACA 57.281 42.857 0.00 0.00 0.00 2.90
140 142 7.775053 TGAGTTTATGAAAAGCACCCTTTAT 57.225 32.000 0.00 0.00 40.30 1.40
145 147 6.919721 TGTTATGAGTTTATGAAAAGCACCC 58.080 36.000 0.00 0.00 0.00 4.61
205 207 5.768164 TGTATCATAGTTATGCAGAGTCCGA 59.232 40.000 0.00 0.00 33.76 4.55
207 209 6.642950 GTGTGTATCATAGTTATGCAGAGTCC 59.357 42.308 0.00 0.00 33.76 3.85
209 211 7.112452 TGTGTGTATCATAGTTATGCAGAGT 57.888 36.000 0.00 0.00 33.76 3.24
226 228 3.375610 GTGTGTTGTGTTGGATGTGTGTA 59.624 43.478 0.00 0.00 0.00 2.90
234 236 2.080693 GTGTGAGTGTGTTGTGTTGGA 58.919 47.619 0.00 0.00 0.00 3.53
278 282 5.584649 TCTTATATGACTTTGCCCTTTGTCG 59.415 40.000 0.00 0.00 32.64 4.35
285 289 6.405842 CCTTTTGGTCTTATATGACTTTGCCC 60.406 42.308 15.98 2.32 37.16 5.36
306 310 0.974010 TCCTCCGCCGACATACCTTT 60.974 55.000 0.00 0.00 0.00 3.11
310 314 0.458669 TTCTTCCTCCGCCGACATAC 59.541 55.000 0.00 0.00 0.00 2.39
339 343 6.319658 TGTCAATCTCTGTTTTCTTTGCTTCT 59.680 34.615 0.00 0.00 0.00 2.85
384 388 3.328505 CCATCAAAAGATTGTTGGTGCC 58.671 45.455 9.48 0.00 45.40 5.01
596 600 6.441093 TGACTTTGACCAGATTTCATATGC 57.559 37.500 0.00 0.00 0.00 3.14
601 605 6.826231 TGTAGTTTGACTTTGACCAGATTTCA 59.174 34.615 0.00 0.00 0.00 2.69
723 728 9.630098 AAATGTCAACAATCACAGTATGAAATC 57.370 29.630 0.00 0.00 41.93 2.17
762 767 7.835822 TGCTTCTTTTTAGCCTGCATATAAAA 58.164 30.769 6.73 6.73 37.85 1.52
768 808 2.094338 GCTGCTTCTTTTTAGCCTGCAT 60.094 45.455 0.00 0.00 37.85 3.96
774 814 3.676646 CACATTGGCTGCTTCTTTTTAGC 59.323 43.478 0.00 0.00 39.10 3.09
783 866 0.319405 GCTTTCCACATTGGCTGCTT 59.681 50.000 0.00 0.00 37.47 3.91
787 870 0.828762 TGCTGCTTTCCACATTGGCT 60.829 50.000 0.00 0.00 37.47 4.75
806 889 0.881118 GAACAACATCCACCGTGCAT 59.119 50.000 0.00 0.00 0.00 3.96
847 931 0.033796 AGATGGTTGGGGATGTGCAG 60.034 55.000 0.00 0.00 0.00 4.41
848 932 0.034186 GAGATGGTTGGGGATGTGCA 60.034 55.000 0.00 0.00 0.00 4.57
849 933 0.034186 TGAGATGGTTGGGGATGTGC 60.034 55.000 0.00 0.00 0.00 4.57
850 934 2.020694 GCTGAGATGGTTGGGGATGTG 61.021 57.143 0.00 0.00 0.00 3.21
851 935 0.257039 GCTGAGATGGTTGGGGATGT 59.743 55.000 0.00 0.00 0.00 3.06
1006 1110 3.145286 GAGCAAGGCAAATATCTCCCTC 58.855 50.000 0.00 0.00 0.00 4.30
1038 1148 3.385384 CTGGCTGACGGGCTCTCA 61.385 66.667 9.53 0.00 41.48 3.27
1046 1156 1.373497 GTGTGGTCTCTGGCTGACG 60.373 63.158 0.00 0.00 35.45 4.35
1637 1758 2.232941 ACAGAAGTAAATTCGGGAGCGA 59.767 45.455 0.00 0.00 43.16 4.93
1645 1766 7.010275 GGAGGACGAACATACAGAAGTAAATTC 59.990 40.741 0.00 0.00 38.28 2.17
1671 1792 0.960861 GGCTGGAAGAAAGAACCGGG 60.961 60.000 6.32 0.00 34.07 5.73
1785 1927 6.961554 CGAGGATAAAAACACAGCAGAATAAC 59.038 38.462 0.00 0.00 0.00 1.89
1798 1940 5.383130 GCAGAACAAGACGAGGATAAAAAC 58.617 41.667 0.00 0.00 0.00 2.43
1875 2017 6.747659 ATTTTACTTGCGTTTGTTGTCATC 57.252 33.333 0.00 0.00 0.00 2.92
1882 2030 7.910304 TGCATTTTTATTTTACTTGCGTTTGT 58.090 26.923 0.00 0.00 0.00 2.83
2096 2252 9.573133 GTAATTAAAGCTCGTTAACTGGTACTA 57.427 33.333 3.71 0.00 0.00 1.82
2097 2253 8.309656 AGTAATTAAAGCTCGTTAACTGGTACT 58.690 33.333 3.71 0.00 0.00 2.73
2098 2254 8.378421 CAGTAATTAAAGCTCGTTAACTGGTAC 58.622 37.037 3.71 0.00 0.00 3.34
2099 2255 7.063780 GCAGTAATTAAAGCTCGTTAACTGGTA 59.936 37.037 3.71 0.00 0.00 3.25
2100 2256 6.128363 GCAGTAATTAAAGCTCGTTAACTGGT 60.128 38.462 3.71 0.00 0.00 4.00
2101 2257 6.128391 TGCAGTAATTAAAGCTCGTTAACTGG 60.128 38.462 3.71 0.00 0.00 4.00
2120 2276 4.929819 TTCTCCTACGCATAATGCAGTA 57.070 40.909 0.00 0.00 45.36 2.74
2129 2285 4.541973 TGCATCATATTCTCCTACGCAT 57.458 40.909 0.00 0.00 0.00 4.73
2133 2289 4.153835 GCTGCTTGCATCATATTCTCCTAC 59.846 45.833 0.00 0.00 42.31 3.18
2136 2292 3.058155 CAGCTGCTTGCATCATATTCTCC 60.058 47.826 0.00 0.00 45.94 3.71
2147 2310 2.971095 AAGCCAGTCAGCTGCTTGCA 62.971 55.000 25.08 2.99 44.11 4.08
2173 2339 1.519455 GATCGTCCCTGCGTCCAAG 60.519 63.158 0.00 0.00 0.00 3.61
2179 2345 1.227089 CTTCCAGATCGTCCCTGCG 60.227 63.158 0.00 0.00 0.00 5.18
2566 2734 2.202932 GATGCTGCCGTCCACGAT 60.203 61.111 0.00 0.00 43.02 3.73
2745 2913 2.104331 CGCCGGAACAGCTCGTAT 59.896 61.111 5.05 0.00 0.00 3.06
2881 3049 2.204059 AGGCAGCTCCTTGGACCT 60.204 61.111 0.00 0.00 44.75 3.85
2985 3153 0.869880 CGAACGCCAGCGACATGATA 60.870 55.000 20.32 0.00 42.83 2.15
3030 3198 1.472376 GCTGCGAAGTAGAGGAAGCAT 60.472 52.381 0.00 0.00 45.23 3.79
3048 3216 4.887987 GCGCTCTCTGGCATCGCT 62.888 66.667 0.00 0.00 42.19 4.93
3144 3312 3.680196 TACCCCTGCCCGACCTCT 61.680 66.667 0.00 0.00 0.00 3.69
4029 4197 0.389556 CATCGGCATCATCCTCCTCG 60.390 60.000 0.00 0.00 0.00 4.63
4539 4712 6.978659 CACTAGAACGACAAGAATGCCTTATA 59.021 38.462 0.00 0.00 32.86 0.98
4540 4713 5.812642 CACTAGAACGACAAGAATGCCTTAT 59.187 40.000 0.00 0.00 32.86 1.73
4541 4714 5.168569 CACTAGAACGACAAGAATGCCTTA 58.831 41.667 0.00 0.00 32.86 2.69
4542 4715 3.997021 CACTAGAACGACAAGAATGCCTT 59.003 43.478 0.00 0.00 34.91 4.35
4543 4716 3.006967 ACACTAGAACGACAAGAATGCCT 59.993 43.478 0.00 0.00 0.00 4.75
4544 4717 3.326747 ACACTAGAACGACAAGAATGCC 58.673 45.455 0.00 0.00 0.00 4.40
4545 4718 3.368236 GGACACTAGAACGACAAGAATGC 59.632 47.826 0.00 0.00 0.00 3.56
4587 4767 0.586319 CACAACGTGCTTGGTTCGAT 59.414 50.000 0.00 0.00 33.66 3.59
4616 4796 2.695147 TGTCAAGAACAGCAGAGACAGA 59.305 45.455 0.00 0.00 32.76 3.41
4714 6729 6.041511 TGGTCCATATGAAAATTGCAATTCG 58.958 36.000 24.28 7.73 0.00 3.34
4772 6805 6.920695 ACCCTACCCATAGAAAAACCTAAT 57.079 37.500 0.00 0.00 0.00 1.73
4774 6807 5.574120 GCAACCCTACCCATAGAAAAACCTA 60.574 44.000 0.00 0.00 0.00 3.08
4786 6819 4.668138 AAGAAATTAGCAACCCTACCCA 57.332 40.909 0.00 0.00 0.00 4.51
4790 6823 6.308015 TGCTCTAAGAAATTAGCAACCCTA 57.692 37.500 0.00 0.00 41.74 3.53
4807 6840 3.451178 GGGGTCTTGTTGTAGATGCTCTA 59.549 47.826 0.00 0.00 0.00 2.43
4822 6855 1.988406 GTGCGGGTAGAGGGGTCTT 60.988 63.158 0.00 0.00 0.00 3.01
4823 6856 2.363925 GTGCGGGTAGAGGGGTCT 60.364 66.667 0.00 0.00 0.00 3.85
4831 6864 0.736325 CGAGAGTTTGGTGCGGGTAG 60.736 60.000 0.00 0.00 0.00 3.18
4832 6865 1.290955 CGAGAGTTTGGTGCGGGTA 59.709 57.895 0.00 0.00 0.00 3.69
4833 6866 2.030562 CGAGAGTTTGGTGCGGGT 59.969 61.111 0.00 0.00 0.00 5.28
4835 6868 2.742372 CCCGAGAGTTTGGTGCGG 60.742 66.667 0.00 0.00 41.53 5.69
4837 6870 2.281484 TGCCCGAGAGTTTGGTGC 60.281 61.111 0.00 0.00 0.00 5.01
4838 6871 2.328099 GCTGCCCGAGAGTTTGGTG 61.328 63.158 0.00 0.00 0.00 4.17
4839 6872 2.032681 GCTGCCCGAGAGTTTGGT 59.967 61.111 0.00 0.00 0.00 3.67
4870 6903 2.202298 GCAATTTCGCGTCCGGTG 60.202 61.111 5.77 0.36 34.56 4.94
4874 6907 2.178273 GGTGGCAATTTCGCGTCC 59.822 61.111 5.77 0.00 0.00 4.79
4938 6971 3.117851 TGGATATGGACAAATTGGCGGTA 60.118 43.478 0.00 0.00 0.00 4.02
4939 6972 2.306847 GGATATGGACAAATTGGCGGT 58.693 47.619 0.00 0.00 0.00 5.68
4949 7068 1.488705 GGCGGGGATGGATATGGACA 61.489 60.000 0.00 0.00 0.00 4.02
4983 7102 0.543749 GGTCAGACAATGAGAGGGGG 59.456 60.000 2.17 0.00 39.07 5.40
4984 7103 1.279496 TGGTCAGACAATGAGAGGGG 58.721 55.000 2.17 0.00 39.07 4.79
4985 7104 2.616510 GGTTGGTCAGACAATGAGAGGG 60.617 54.545 2.17 0.00 39.07 4.30
4986 7105 2.616510 GGGTTGGTCAGACAATGAGAGG 60.617 54.545 2.17 0.00 39.07 3.69
4987 7106 2.304180 AGGGTTGGTCAGACAATGAGAG 59.696 50.000 2.17 0.00 39.07 3.20
4988 7107 2.338809 AGGGTTGGTCAGACAATGAGA 58.661 47.619 2.17 0.00 39.07 3.27
4989 7108 2.867109 AGGGTTGGTCAGACAATGAG 57.133 50.000 2.17 0.00 39.07 2.90
4990 7109 2.711009 AGAAGGGTTGGTCAGACAATGA 59.289 45.455 2.17 0.00 34.79 2.57
4991 7110 3.077359 GAGAAGGGTTGGTCAGACAATG 58.923 50.000 2.17 0.00 32.24 2.82
4992 7111 2.040412 GGAGAAGGGTTGGTCAGACAAT 59.960 50.000 2.17 0.00 32.24 2.71
4993 7112 1.420138 GGAGAAGGGTTGGTCAGACAA 59.580 52.381 2.17 0.00 0.00 3.18
4996 7115 1.150135 AGAGGAGAAGGGTTGGTCAGA 59.850 52.381 0.00 0.00 0.00 3.27
5004 7123 3.329225 CCAAAAGAGAAGAGGAGAAGGGT 59.671 47.826 0.00 0.00 0.00 4.34
5066 7185 2.100631 CGGATGACGGTGGAGCAAC 61.101 63.158 0.00 0.00 39.42 4.17
5143 7262 3.047877 GGCGTTGACCTTGACCGG 61.048 66.667 0.00 0.00 0.00 5.28
5161 7280 1.153881 GAGTTGGACGTACCGAGGC 60.154 63.158 0.00 0.00 42.61 4.70
5164 7283 0.877071 GAGTGAGTTGGACGTACCGA 59.123 55.000 0.00 0.00 42.61 4.69
5165 7284 0.594602 TGAGTGAGTTGGACGTACCG 59.405 55.000 0.00 0.00 42.61 4.02
5166 7285 4.650754 ATATGAGTGAGTTGGACGTACC 57.349 45.455 0.00 0.00 39.54 3.34
5167 7286 7.802251 GTGTATATATGAGTGAGTTGGACGTAC 59.198 40.741 0.00 0.00 0.00 3.67
5184 7313 6.404844 GCACATAGAGCACGAGGTGTATATAT 60.405 42.308 10.23 0.00 36.24 0.86
5198 7327 3.632643 TTTCATGGAGCACATAGAGCA 57.367 42.857 0.00 0.00 37.84 4.26
5205 7334 3.628942 GCTCATACATTTCATGGAGCACA 59.371 43.478 10.32 0.00 32.02 4.57
5209 7338 2.810274 CCGGCTCATACATTTCATGGAG 59.190 50.000 0.00 0.00 33.60 3.86
5211 7340 2.575532 ACCGGCTCATACATTTCATGG 58.424 47.619 0.00 0.00 33.60 3.66
5212 7341 4.637483 AAACCGGCTCATACATTTCATG 57.363 40.909 0.00 0.00 0.00 3.07
5259 7388 6.762077 TTCATGATGGATCCATAGGTTACA 57.238 37.500 27.38 19.06 36.70 2.41
5275 7404 4.458256 TCCATAGCCACCATTTCATGAT 57.542 40.909 0.00 0.00 0.00 2.45
5281 7410 2.044353 AGGGTTTCCATAGCCACCATTT 59.956 45.455 0.00 0.00 38.16 2.32
5313 7442 7.486647 AGGCAATGAACTTGTGAATATGAATC 58.513 34.615 0.00 0.00 37.18 2.52
5325 7454 2.358957 TCCGATGAGGCAATGAACTTG 58.641 47.619 0.00 0.00 40.77 3.16
5326 7455 2.787473 TCCGATGAGGCAATGAACTT 57.213 45.000 0.00 0.00 40.77 2.66
5334 7464 1.441729 GTCCGAATCCGATGAGGCA 59.558 57.895 0.00 0.00 40.77 4.75
5340 7470 1.954382 TCTTCATCGTCCGAATCCGAT 59.046 47.619 0.00 0.00 44.07 4.18
5350 7480 7.936950 TCATCATTTCAGTATCTTCATCGTC 57.063 36.000 0.00 0.00 0.00 4.20
5352 7482 8.530269 TCATCATCATTTCAGTATCTTCATCG 57.470 34.615 0.00 0.00 0.00 3.84
5379 7509 8.668510 TCATCATCATCATCATCATCATCATC 57.331 34.615 0.00 0.00 0.00 2.92
5380 7510 9.064706 CATCATCATCATCATCATCATCATCAT 57.935 33.333 0.00 0.00 0.00 2.45
5381 7511 8.267183 TCATCATCATCATCATCATCATCATCA 58.733 33.333 0.00 0.00 0.00 3.07
5382 7512 8.668510 TCATCATCATCATCATCATCATCATC 57.331 34.615 0.00 0.00 0.00 2.92
5383 7513 9.064706 CATCATCATCATCATCATCATCATCAT 57.935 33.333 0.00 0.00 0.00 2.45
5384 7514 8.267183 TCATCATCATCATCATCATCATCATCA 58.733 33.333 0.00 0.00 0.00 3.07
5385 7515 8.668510 TCATCATCATCATCATCATCATCATC 57.331 34.615 0.00 0.00 0.00 2.92
5386 7516 9.064706 CATCATCATCATCATCATCATCATCAT 57.935 33.333 0.00 0.00 0.00 2.45
5387 7517 8.267183 TCATCATCATCATCATCATCATCATCA 58.733 33.333 0.00 0.00 0.00 3.07
5388 7518 8.668510 TCATCATCATCATCATCATCATCATC 57.331 34.615 0.00 0.00 0.00 2.92
5389 7519 7.228308 GCTCATCATCATCATCATCATCATCAT 59.772 37.037 0.00 0.00 0.00 2.45
5390 7520 6.540189 GCTCATCATCATCATCATCATCATCA 59.460 38.462 0.00 0.00 0.00 3.07
5391 7521 6.292596 CGCTCATCATCATCATCATCATCATC 60.293 42.308 0.00 0.00 0.00 2.92
5392 7522 5.525378 CGCTCATCATCATCATCATCATCAT 59.475 40.000 0.00 0.00 0.00 2.45
5393 7523 4.870426 CGCTCATCATCATCATCATCATCA 59.130 41.667 0.00 0.00 0.00 3.07
5394 7524 4.870991 ACGCTCATCATCATCATCATCATC 59.129 41.667 0.00 0.00 0.00 2.92
5395 7525 4.833390 ACGCTCATCATCATCATCATCAT 58.167 39.130 0.00 0.00 0.00 2.45
5396 7526 4.243270 GACGCTCATCATCATCATCATCA 58.757 43.478 0.00 0.00 0.00 3.07
5397 7527 3.617706 GGACGCTCATCATCATCATCATC 59.382 47.826 0.00 0.00 0.00 2.92
5398 7528 3.007614 TGGACGCTCATCATCATCATCAT 59.992 43.478 0.00 0.00 0.00 2.45
5399 7529 2.366266 TGGACGCTCATCATCATCATCA 59.634 45.455 0.00 0.00 0.00 3.07
5400 7530 3.036075 TGGACGCTCATCATCATCATC 57.964 47.619 0.00 0.00 0.00 2.92
5401 7531 3.070590 TCTTGGACGCTCATCATCATCAT 59.929 43.478 0.00 0.00 0.00 2.45
5402 7532 2.431782 TCTTGGACGCTCATCATCATCA 59.568 45.455 0.00 0.00 0.00 3.07
5403 7533 3.058450 CTCTTGGACGCTCATCATCATC 58.942 50.000 0.00 0.00 0.00 2.92
5404 7534 2.224233 CCTCTTGGACGCTCATCATCAT 60.224 50.000 0.00 0.00 34.57 2.45
5405 7535 1.137675 CCTCTTGGACGCTCATCATCA 59.862 52.381 0.00 0.00 34.57 3.07
5406 7536 1.410517 TCCTCTTGGACGCTCATCATC 59.589 52.381 0.00 0.00 37.46 2.92
5407 7537 1.411977 CTCCTCTTGGACGCTCATCAT 59.588 52.381 0.00 0.00 37.46 2.45
5408 7538 0.820226 CTCCTCTTGGACGCTCATCA 59.180 55.000 0.00 0.00 37.46 3.07
5409 7539 1.107114 TCTCCTCTTGGACGCTCATC 58.893 55.000 0.00 0.00 37.46 2.92
5416 7546 2.360801 CCTTCTCGATCTCCTCTTGGAC 59.639 54.545 0.00 0.00 37.46 4.02
5448 7578 0.250166 AACCCTTGAAGTTCCGGACG 60.250 55.000 1.83 0.00 0.00 4.79
5453 7583 5.047306 CCCTTTATGAAACCCTTGAAGTTCC 60.047 44.000 0.00 0.00 0.00 3.62
5458 7588 3.169908 GGCCCTTTATGAAACCCTTGAA 58.830 45.455 0.00 0.00 0.00 2.69
5468 7598 5.365619 GAATAACTCTTCGGCCCTTTATGA 58.634 41.667 0.00 0.00 0.00 2.15
5470 7600 4.445879 GGGAATAACTCTTCGGCCCTTTAT 60.446 45.833 0.00 0.00 0.00 1.40
5477 7607 1.485066 TCCAGGGAATAACTCTTCGGC 59.515 52.381 0.00 0.00 0.00 5.54
5509 7640 3.507622 CAGAAGGGAAAATCCAAGGTGTC 59.492 47.826 0.00 0.00 38.64 3.67
5559 7690 7.770801 AGCAAGAACACCAAAATAAAAAGAC 57.229 32.000 0.00 0.00 0.00 3.01
5597 7729 9.561069 AAAGTCACTACTCTGAATAAAACACAT 57.439 29.630 0.00 0.00 33.75 3.21
5605 7737 6.663953 ACTAGGCAAAGTCACTACTCTGAATA 59.336 38.462 0.00 0.00 33.75 1.75
5609 7741 4.792521 ACTAGGCAAAGTCACTACTCTG 57.207 45.455 0.00 0.00 33.75 3.35
5649 7781 2.031870 GCTATTAGGGTTTTGGGGCAG 58.968 52.381 0.00 0.00 0.00 4.85
5650 7782 1.342574 GGCTATTAGGGTTTTGGGGCA 60.343 52.381 0.00 0.00 0.00 5.36
5651 7783 1.410004 GGCTATTAGGGTTTTGGGGC 58.590 55.000 0.00 0.00 0.00 5.80


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

AutoCloner maintained by Alex Coulton.