PCMA: fast and accurate multiple sequence alignment based on profile consistency
PCMA: fast and accurate multiple sequence alignment based on profile consistency
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DOI：
10.1093/bioinformatics/btg008
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发表时间：
2003-02-12
期刊：
影响因子：
5.8
通讯作者：
Grishin, NV
中科院分区：
文献类型：
--
作者：
Pei, JM;Sadreyev, R;Grishin, NV
PCMA（剖面一致性多序列比对）是一种结合了两种不同比对策略的渐进式多序列比对程序。高度相似的序列会像ClustalW一样快速对齐，形成预先对齐的组。T-Coffee策略应用于基于概要文件的比较和一致性来对齐相对不同的组。预对准群体局部比对的评分功能基于一种新的剖面-剖面比较方法，该方法是对剖面-序列比较的PSI-BLAST方法的推广。PCMA以灵活的方式平衡速度和准确性，适用于对齐大量序列。
PCMA (profile consistency multiple sequence alignment) is a progressive multiple sequence alignment program that combines two different alignment strategies. Highly similar sequences are aligned in a fast way as in ClustalW, forming pre-aligned groups. The T-Coffee strategy is applied to align the relatively divergent groups based on profile-profile comparison and consistency. The scoring function for local alignments of pre-aligned groups is based on a novel profile-profile comparison method that is a generalization of the PSI-BLAST approach to profile-sequence comparison. PCMA balances speed and accuracy in a flexible way and is suitable for aligning large numbers of sequences.