DNA&Amino Acid Alignment

ALN

Pairwase alignment of biological sequences supporting spliced alignment procedures

PRRN

Multiple sequence alignment by doubly nested randomized iterative method

SPALN

Mapping and Alignment of a set of cDNA sequences onto a genomic sequence

CGALN

Fast and Memory-efficient pairwise genomic sequence alignment program

Geneme Analysis Tool

HAL (@bioportal)

Human Genome Annotation Library

Promoter Analysis

HEGMA

Equiprobable-Gray-code-based Motif Alignment Tool