Align multiple amino acid or nucleotide sequences.
☆79Sep 17, 2020Updated 5 years ago
Alternatives and similar repositories for mafft
Users that are interested in mafft are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Multiple sequence aligner for protein and DNA/RNA.☆26Jan 3, 2018Updated 8 years ago
- Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, e…☆276Apr 2, 2026Updated 2 weeks ago
- The Subread software package is a tool kit for processing next-gen sequencing data. It includes Subread aligner, Subjunc exon-exon juncti…☆57Jul 30, 2023Updated 2 years ago
- Fast and accurately polish the genome generated by long reads.☆242Jan 9, 2025Updated last year
- ☆15Aug 22, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- CGView is a Java package for generating high-quality, zoomable maps of circular genomes.☆53Mar 2, 2026Updated last month
- Non-parametric structural variant genotyper☆15Nov 18, 2021Updated 4 years ago
- A whole-genome and alignment-free prokaryotic phylogeny tool☆23Mar 9, 2025Updated last year
- PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. Please report only **techni…☆192Jan 29, 2026Updated 2 months ago
- the we-flyin WFA-guided ultralong tiling sequence aligner☆10May 13, 2021Updated 4 years ago
- rhierbaps: R implementation of hierBAPS☆37Feb 23, 2026Updated last month
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- A fork of exonerate: a generic tool for sequence alignment☆71Nov 30, 2023Updated 2 years ago
- a hidden Markov model to infer simple repeats from genome sequences☆37Feb 19, 2021Updated 5 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- MUMmer3☆17Jan 12, 2022Updated 4 years ago
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆214Mar 9, 2026Updated last month
- RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.☆301Apr 2, 2026Updated 2 weeks ago
- A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0☆255Apr 9, 2026Updated last week
- De-Novo Repeat Discovery Tool☆236Jul 21, 2025Updated 8 months ago
- Tool for decomposition centromeric assemblies and long reads into monomers☆37Sep 17, 2022Updated 3 years ago
- Nanopanel2: a somatic variant caller for Nanopore panel sequencing data☆11Sep 21, 2021Updated 4 years ago
- RAxML Next Generation: faster, easier-to-use and more flexible☆462Apr 8, 2026Updated last week
- Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…☆12Jan 22, 2020Updated 6 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆26Apr 29, 2024Updated last year
- ☆347Mar 4, 2025Updated last year
- Identify and find telomeres, or telomeric repeats in a genome.☆164Nov 24, 2025Updated 4 months ago
- Version 5 of the CAFE phylogenetics software☆165Mar 16, 2026Updated last month
- A parallel wrapper for LTR_FINDER☆55Mar 8, 2026Updated last month
- Get assembly statistics from FASTA and FASTQ files☆124May 9, 2023Updated 2 years ago
- Close assembly gaps using long-reads at high accuracy.☆51Feb 20, 2024Updated 2 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- Mummer alignment tool☆554Feb 4, 2025Updated last year
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- HMMER: biological sequence analysis using profile HMMs☆408Feb 16, 2026Updated 2 months ago
- ☆11Dec 9, 2022Updated 3 years ago
- A fast multiple sequence alignment program.☆154Apr 8, 2026Updated last week
- IQ-TREE software version 2: phylogenetics by maximum likelihood☆328Mar 12, 2026Updated last month
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆209Nov 18, 2022Updated 3 years ago
- Program for aligning DNA sequences, a pairwise aligner.☆243Mar 27, 2026Updated 2 weeks ago
- ☆16Jul 25, 2021Updated 4 years ago