Table 2 Empirical amplification rates in dependence on the number of primer-template mismatches and other properties.
From: Modeling the Amplification of Immunoglobulins through Machine Learning on Sequence-Specific Features
Number of mismatches | i X | ΔG [kcal/mol] | Amplification rate | Primer set |
|---|---|---|---|---|
0 | [0, 0] | [−16.616, −15.696] | 100% | Overall |
1 | [0, 3] | [−14.353, −12.1] | 100% | Overall |
2 | [0, 3] | [−12.0455, −9.656] | 100% | Overall |
3 | [0, 4] | [−11.607, −7.9185] | 100% | Overall |
4 | [2, 6] | [−10.796, −7.409] | 92.31% | Overall |
5 | [0, 3] | [−7.047, −6.047] | 88.89% | Overall |
6 | [0, 0] | [−8.603, −5.11325] | 83.33% | Overall |
7 | [0, 3] | [−5.39, −4.212] | 67.19% | Overall |
8 | [3, 6] | [−5.56075, −2.539] | 34.04% | Overall |
9 | [4, 6] | [−3.5335, −2.1325] | 23.08% | Overall |
10 | [4, 6] | [−4.09, −1.724] | 18.02% | Overall |
11 | [4, 6] | [−3.74, −1.695] | 10.53% | Overall |
12 | [6, 6] | [−2.624, −1.413] | 3.75% | Overall |
0 | [0, 0] | [−16.07, −15.609] | 100% | Set 1 |
1 | [0, 3] | [−13.283, −12.1] | 100% | Set 1 |
2 | [0, 3.25] | [−11.94175, −9.656] | 100% | Set 1 |
3 | [0, 4] | [−11.607, −7.66375] | 100% | Set 1 |
4 | [2, 6] | [−10.974, −6.686] | 90.91% | Set 1 |
5 | [2.5, 4.5] | [−8.36825, −6.4925] | 75% | Set 1 |
6 | [3.25, 4] | [−4.4545, −2.9] | 33.33% | Set 1 |
7 | [3, 6] | [−4.212, −2.539] | 9.52% | Set 1 |
8 | [4, 6] | [−3.303, −2.06275] | 18.06% | Set 1 |
9 | [5, 6] | [−3.0985, −2.0395] | 13.51% | Set 1 |
10 | [5, 6] | [−3.393, −1.695] | 11.26% | Set 1 |
11 | [5, 6] | [−3.351, −1.695] | 4.2% | Set 1 |
12 | [6, 6] | [−2.608, −1.413] | 2.6% | Set 1 |
0 | [0, 0] | [−20.79275, −16.616] | 100% | Set 2 |
1 | [0, 2] | [−17.782, −14.045] | 100% | Set 2 |
2 | [0, 0] | [−14.4805, −12.5605] | 100% | Set 2 |
3 | [1, 1] | [−10.505, −10.505] | 100% | Set 2 |
4 | [0.75, 2.25] | [−10.29475, −9.29225] | 100% | Set 2 |
5 | [0, 0] | [−6.047, −6.047] | 100% | Set 2 |
6 | [0, 0] | [−8.603, −5.208] | 100% | Set 2 |
7 | [0, 0] | [−5.39, −5.208] | 95.35% | Set 2 |
8 | [0, 0] | [−5.937, −3.95] | 86.36% | Set 2 |
9 | [1, 6] | [−5.58, −2.89] | 78.95% | Set 2 |
10 | [0, 3] | [−5.208, −2.956] | 66.67% | Set 2 |
11 | [0, 2.25] | [−5.208, −2.8395] | 64.29% | Set 2 |
12 | [4, 5.5] | [−2.6225, −1.9615] | 33.33% | Set 2 |