一种在任意长度的DNA序列中定位相关短序列集的便捷方法。

A convenient method for locating sets of related short sequences in DNA sequences of any length.

作者信息

Salemme A, Furano A V

出版信息

Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):257-62. doi: 10.1093/nar/12.1part1.257.

DOI:10.1093/nar/12.1part1.257

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC321002/

Abstract

In investigating sequence variants in a family of highly repeated rat DNA, we needed to search the consensus sequence of the repeat unit of this family for short sequences which would become, with one base change, recognition sites for various restriction endonucleases. To do this, we have designed a pair of programs to search DNA sequences of any length for sets of related short sequences, allowing user-specified mismatches in the short sequence. Since putative regulatory regions are generally short sequences, these programs are also useful for locating all possible versions of such sequences in any given DNA. We describe the programs, and present results of searches using the programs.

摘要

在研究高度重复的大鼠DNA家族中的序列变异时，我们需要在该家族重复单元的共有序列中搜索短序列，这些短序列经一个碱基变化后将成为各种限制性内切酶的识别位点。为此，我们设计了一对程序，用于在任意长度的DNA序列中搜索相关短序列集，并允许用户指定短序列中的错配情况。由于假定的调控区域通常是短序列，这些程序也有助于在任何给定的DNA中定位此类序列的所有可能版本。我们描述了这些程序，并展示了使用这些程序进行搜索的结果。

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