Similarity score calculation methods and their parameters.

For each feature the method, its parameters and, when needed, the substitution matrix are provided. The parameters and give the gap opening and gap extension penalties and gives a similarity distance threshold below which two amino acids are still considered a match. The parameters and , are parameters of the local alignment and mismatch kernel, respectively. The parameter defines the length of the flanking regions considered for the alignment.

对于每个特征，均提供了方法、其参数以及必要时替换矩阵。参数α和β分别赋予间隙开启和间隙扩展的惩罚，而参数γ则设定了两氨基酸仍被视为匹配的相似度距离阈值。参数α和β分别为局部比对和错配核的参数，而参数δ则定义了用于比对的侧翼区域的长度。