介绍
RepeatMasker
Developed by Arian Smit and Robert Hubley
Please refer to: Smit, AFA, Hubley, R. & Green, P "RepeatMasker" at
http://www.repeatmasker.org
RepeatMasker is a program that screens DNA sequences for interspersed
repeats and low complexity DNA sequences. The output of the program is
a detailed annotation of the repeats that are present in the query
sequence as well as a modified version of the query sequence in which
all the annotated repeats have been masked (default: replaced by
Ns). Sequence comparisons in RepeatMasker are performed by the program
cross_match, an efficient implementation of the Smith-Waterman-Gotoh
algorithm developed by Phil Green, or by WU-Blast developed by Warren
Gish
输入
fasta格式例如(可以是多条序列):
>seq1
AAAAAAAAGCTACTTGGAGTACCAATAATAAAGTGAGCCCACCTTCCTGGTACCCAGACATTTC
结果
*.tbl 重复序列预测结果
*.masked 屏蔽掉重复序列的新序列
*.out 重复序列预测结果整理后的表格