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Table 1 Parameters used in miRprimer for calculation of secondary structure score

From: A tool for design of primers for microRNA-specific quantitative RT-qPCR

Parameter Values Score
2 nucleotides at 3′-end 0 or 2 Wsa 0.7
1 Wa 1.0
3 nucleotides at 3′-end 0 or 3 Wsa 0.3
1 or 2 Wsa 1.0
0 or 5 Wsa 0.1
5 nucleotides at 3′-end 1 or 4 Wsa 0.5
2 or 3 Wsa 1.0
3′-self-annealing or primer dimer 5 nucleotides 0.1
4 nucleotides 0.2
Less 1.0
Internal self-annealing or primer dimer 8 nucleotides 0.1
7 nucleotides 0.3
6 nucleotides 0.8
Less 1.0
  1. aW: A or T.