SIMPLE34：一种针对VAX和Sun计算机改进和增强后的SIMPLE算法实现，用于分析核苷酸序列中的聚类重复基序。

SIMPLE34: an improved and enhanced implementation for VAX and Sun computers of the SIMPLE algorithm for analysis of clustered repetitive motifs in nucleotide sequences.

作者信息

Hancock J M, Armstrong J S

机构信息

Molecular Evolution and Systematics Group, Research School of Biological Sciences, Australian National University, Canberra.

出版信息

Comput Appl Biosci. 1994 Feb;10(1):67-70. doi: 10.1093/bioinformatics/10.1.67.

DOI:10.1093/bioinformatics/10.1.67

PMID:7514951

Abstract

SIMPLE34 is an improved and enhanced version of SIMPLE for Vax and SunOS systems. It now provides a length-independent measure of the overall level of tri- and tetranucleotide motif clustering within nucleotide sequences and its significant deviation from random expectation. It now also provides information on tri- and tetranucleotide motifs showing higher levels of clustering than would be expected in random sequences. Sequence simplicity of test sequences can be judged with respect to random sequences generated on the basis of base composition, positional base composition or doublet frequency. These options can be used to investigate factors resulting in sequence simplicity.

摘要

SIMPLE34是适用于Vax和SunOS系统的SIMPLE的改进增强版本。它现在提供了一种与长度无关的方法，用于衡量核苷酸序列中三核苷酸和四核苷酸基序聚类的总体水平及其与随机预期的显著偏差。它现在还提供了有关三核苷酸和四核苷酸基序的信息，这些基序显示出比随机序列中预期的更高水平的聚类。可以根据基于碱基组成、位置碱基组成或双联体频率生成的随机序列来判断测试序列的序列简单性。这些选项可用于研究导致序列简单性的因素。