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ILPs were designed according to the recognition sites of the restriction endonuclease tested previously on the target genomic DNA (Each ILP should have a Tm value between 40°C and 50°C, and its secondary structure and self-hybridization score should below 50. For LNA Tm and spiked oligo hybridization tests, see http://lnatools.com for protocols).
All primers have a Tm value of 60°C.
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On the other hand, mutant R187A has a Tm value similar to the wild type value (Table 3), suggesting that the hypothesized hydrogen bonds between R187 and E107 are neither present nor important for folding in native DraIII.
Both primers have a Tm of 60°C.
Also, as prn9 is identical under the HybProbes to prn2- 4, it would likewise be predicted to have an identical Tm value to those alleles, however the PCR product size of 300 bp clearly differentiates prn9 from prn2- 4. A two tailed Fishers exact test was utilised to test for statistically significant differences between the observed and historical proportions of the PRN alleles.
In our initial investigation of DNA binding by DB1255, it was a surprise to find that it has a high Tm value, very strong CD signals with ATGA, and 4-fold better binding affinity for ATGA versus AATT.
In contrast, in the PPase-containing group, the variance in Tm values was smaller and there was no overlap in the Tm values obtained for all fungi tested: the LAMP product of each fungus had a specific Tm value, and the average Tm value increased as the GC% of the starting dumbbell-like structure increased.
A hybrid was called positive when the hybrid had a Ct value lower or equal to that of the negative control and a Tm value close to the positive control.
Metallated GFP-SOD1G93A had an apparent Tm value which was 5 6°C higher than the apparent Tm of metallated SOD1WT.
Each oligonucleotide was designed with an optimal specificity and sensitivity to its target gene and has an optimized Tm value.
A genotype was called "Unknown" when a hybrid had a high Ct value but the same Tm as the positive control or a low Ct value but a Tm value was slightly different (± 1.5°C) than the positive control.
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