TROLL——串联重复序列出现定位器。
TROLL--tandem repeat occurrence locator.
作者信息
Castelo Adalberto T, Martins Wellington, Gao Guang R
机构信息
Department of Electrical and Computer Engineering, University of Delaware, 140 Evans Hall, NW 19716, USA.
出版信息
Bioinformatics. 2002 Apr;18(4):634-6. doi: 10.1093/bioinformatics/18.4.634.
SUMMARY
Tandem Repeat Occurrence Locator (TROLL), is a light-weight Simple Sequence Repeat (SSR) finder based on a slight modification of the Aho-Corasick algorithm. It is fast and only requires a standard Personal Computer (PC) to operate. We report running times of 127 s to find all SSRs of length 20 bp or more on the complete Arabdopsis genome--approx. 130 Mbases divided in five chromosomes--using a PC Athlon 650 MHz with 256 MB of RAM.
AVAILABILITY
TROLL is an open source project and is available at http://finder.sourceforge.net.
摘要
串联重复序列出现定位器（TROLL）是一种轻量级的简单序列重复（SSR）查找工具，它基于对Aho-Corasick算法的轻微修改。它速度快，只需要一台标准的个人计算机（PC）即可运行。我们报告了在完整的拟南芥基因组（约130兆碱基，分为五条染色体）上查找所有长度为20个碱基对或更长的SSR的运行时间为127秒，使用的是一台配备256兆字节随机存取存储器的PC Athlon 650兆赫处理器。
可用性
TROLL是一个开源项目，可从http://finder.sourceforge.net获取。
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