求解序列比对得分矩阵，对于两个序列S和T，令[S]和[T]分别为序列S和T的长度，S[i]和T[j](其中正整数i，j满足0≤j< [S]和0≤j <[T])都属于字符集Ω={A,T,C,G,-},对Ω中的任何元素和空符号。

设计S[i]和T[j]两两之间的一个记分值来比较序列间的同一性的优劣,用记分函数σ(x，y)表示，

σ(S[i],T[j])=2 ( S[i]=T[j]≠-)；σ(S[i],T[j])= -1 ( S[i]≠T[j],S[i]≠-,T[j]≠-)；σ(S[i],T[j])= -2 (S[i]orT[j]=-)。-Solve the sequence alignment score matrix for two sequences S and T, so [S] and [T] S and T respectively, sequence length, S [i] and T [j] (which is an integer i, j satisfying 0 ≤ j < [S] and 0 ≤ j < [T]) belong to the character set Ω = {A, T, C, G,-}, any element of Ω, and the empty symbols. Design S [i] and T [j] between any two of a record score to compare the sequence identity between the pros and cons, with the score function σ (x, y) that, σ (S [i], T [j ]) = 2 (S [i] = T [j] ≠-)　σ (S [i], T [j]) =-1 (S [i] ≠ T [j], S [i] ≠- , T [j] ≠-)　σ (S [i], T [j]) =-2 (S [i] orT [j ]=-)。