MAFin: motif detection in multiple alignment files.

ABSTRACT:

Motivation

Whole Genome and Proteome Alignments, represented by the multiple alignment file format, have become a standard approach in comparative genomics and proteomics. These often require identifying conserved motifs, which is crucial for understanding functional and evolutionary relationships. However, current approaches lack a direct method for motif detection within MAF files. We present MAFin, a novel tool that enables efficient motif detection and conservation analysis in MAF files to address this gap, streamlining genomic and proteomic research.

Results

We developed MAFin, the first motif detection tool for Multiple Alignment Format files. MAFin enables the multithreaded search of conserved motifs using three approaches: (i) using user-specified k-mers to search th

SUBMITTER: Patsakis M 

PROVIDER: S-EPMC11978385 | biostudies-literature | 2025 Mar

REPOSITORIES: biostudies-literature