DNA sequence or motif search, alignment, and manipulation
Switch your sequence between multiple sequence alignment formats.
Edit, annotate and draw plasmid sequences.
Search for similar sequences to a nucleotide sequence from various databases.
Compare two nucleotide or protein sequences using a local alignment algorithm.
Compare your query sequence to DNA sequence or protein products of Caenorhabditis elegans or Caenorhabditis briggsae
Compare your query sequence to DNA sequences mapped in, or associated with, plant genomes.
Compare your query sequence to DNA sequence or protein products from Drosophila melanogaster or from Anopheles gambiae genomes.
BLAST your sequence against the Japanese pufferfish, Fugu rubripes ('torafugu'), the smallest known genome among vertebrates.
Compare your query sequence to the working draft sequence of the human genome or its mRNA and protein products.
BLAST your sequence against mouse specific sequences.
Quickly find sequences of 95% and greater similarity of length 40 bases or more for DNA or 80% and greater similarity of length 20 amino acids or more for protein in a genome.
Blast your sequence against zebrafish specific sequences.
Blast your sequence against Rat specific sequences.
To blast the rat genome with options to limit the blast against specific chromosomes.
Detect repetitive sequence in a query DNA sequence by screening it against a collection of repeats.
Find regions suspected of containing coding sequences and visualize nucleotide diversity between two genomic or gene sequences.
Find cloning vector sequences and maps.
Generate random sequences based on measured long-range correlations in the base composition of a given DNA.
Generate a three-dimensional representation for a given RNA or DNA sequence alignment.
Align multiple DNA or protein sequences.
Predict hybridization, folding and melting profiles for two strands of DNA or RNA.
Use a collection of methods to analyze and graphically represent various DNA parameters.
Conduct a variety of analysis of DNA and protein sequences.
Generate images of circular and linear DNA maps to display regions and features of interest.
Use this blast tool to blast query sequence against your own collection of sequences.
Compare two sequences with either local or global alignment algorithms.
Use a collection of tools for protein analyses.
Provides a permanent archive for single-pass DNA sequencing reads and associated traces and quality values.
Retrieve nucleotide sequence from GenBank.
Translate a DNA seq to a protein sequence
Compare physico-chemical properties of different DNA sequences.
Conduct exhaustive sequence alignment for comparative analysis of two non-coding DNA sequences.
A novel tool for de novo motif finding.
Evaluate the accuracy of multiple sequence alignment.
Predict the genetic code of metazoan mitochondria.
Conduct multiple alignments and subsequent quality evaluation.
Web server that computes multiple sequence alignments (MSAs) by running several MSA methods and combining their output into one single model.
Analyze miniature inverted repeat transposable elements (MITEs)in higher eukaryotic genomes.
Find information about DNA sequences.
Visualize the short reads alignment, identify the genetic variation and associate with the annotation information of reference genome.
Provides DNA chromatogram and alignment views, facilitates evaluation of predictions and supports direct manual annotation.
Compare sequences that differ slightly as a result of sequencing errors.
Conduct statistical selection of nucleotide substitution models.
Explore a comprehensive map of regulatory elements in the human genome.
A novel ensemble method for fine-grained integration of generic motif finders.
Align multiple, long genomic DNA sequences quickly and with good sensitivity.
Find restriction digestion map of a DNA sequence.
Find information about patented nucleotide and protein sequences.
Find similar proteins to the translated query in a PROTEIN database. Blastx compares the translation of the nucleotide query sequence to a protein database
Search for putative 3'-processing sites and 3'-UTR sequences for multiple model organisms.
Identify distantly related sequences in both nucleotide and amino acid sequence databases.
Calculate maximum likelihood phylogenies from DNA and protein sequences.
Perform local alignment for non-coding RNA.
Perform user-friendly pipeline phylogenetic analysis of protein or DNA sequences.
Back translate protein multiple sequence alignments.
A comprehensive database of pattern-recognition receptors and their ligands.
A suite of tools to create and maintain web-accessible sequence databases.
Rapid alignment of short sequences to large databases.
Search for short nucleotide or peptide sequences such as cis-elements in nucleotide sequences or small domains and motifs in protein sequences.
Search for specific combinations of oligonucleotide consensus sequences, secondary structure elements and position-weight matrices in given DNA sequences.
Phylemon is a web server that integrates a selected suite of more than 20 different tools from the most popular stand-alone programs of phylogenetic and evolutionary analysis.
Automatically generates and annotates high-quality circular plasmid maps.
Search for annotated information on plasmids and vectors from this comprehensive plasmid repository
Perform multi-sequence analysis for population genetics.
Maximize your ability to discriminate terminal restriction fragments obtained during T-RFLP to take advantage of this powerful community fingerprinting technique.
Perform sequence alignment.
Converts DNA or protein sequence input into various file formats.
Retrieve curated, non-redundant reference mRNA sequences from NCBI.
Use for in silico analysis of regulatory networks.
Search for repetitive elements from diverse eukaryotic organisms.
Identify and mask repeats in DNA sequences.
Find restriction digestion map of a DNA sequence and create a GCG like ladder map.
Take a set of DNA sequences, virtually translate them, align the peptide sequences, and use this as a scaffold for constructing the corresponding DNA multiple alignments.
A web server for practical de novo motif discovery.
Detection of tissue- or tumor-specific isoforms generated through exonization of transposable elements.
Use the SimpleIsBeautiful algorithm basic local alignment search tool (BLAST) for sequence-based homology detection.
Search short inverted segments (length 3 Bp to 5000 Bp) in a DNA sequence.
Search protein/nucleotide databases with keywords and a sequence motif.
A program for efficient gapped and ungapped alignment of short oligonucleotides onto reference sequences.
Compute DNA sequence pattern occurrences p-value on text.
Search DNA motifs against databases of known motifs (JASPAR, TRANSFAC etc.)
Conduct sequence similarity searching against complete proteome or genome databases using the Fasta programs.
Find similar sequences to a query sequence from the Genbank nucleotide databases
Perform computations on DNA melting, thus predict the localized separation of the two strands for DNA sequences.
A tool to detect internal repeats in DNA and amino acid sequences and in 3D structures.
Use a collection of bioinformatics tools at this portal site.
Map the locations and frequencies of DNA tracts composed of only two bases.
Search for various information and analyze repeats in genomic DNA.
Find information about coding sequences that contain the TTA regulatory motif.
Use to eliminate false discoveries from nucleotide parallel sequence technologies.
Conduct and evaluate multiple sequence alignments for protein, DNA and RNA.
Locate conserved elements in biopolymer sequences.
Perform protein nucleotide sequence alignment.
Query multiple databases and user's datasets.
Use this comprehensive tool for translating DNA sequences to the corresponding peptide sequences.
Prepare publication-quality pictures of DNA or protein multiple sequence alignments.
Perform oligo sequence silent mutation analysis, restriction analysis, and scanning for amplification-created restriction sites for the detection of single nucleotide polymorphisms.
Find restriction digestion map of a DNA sequence and also find sites which may be introduced by silent mutagenesis.
Automated discovery, filtering and scoring of DNA sequence motifs using multiple programs and Bayesian approaches.
A public sequence processing service for raw EST traces.
Perform DNA local alignment of genomic sequences in FASTA or plain format.
An engineered zinc finger/target site design tool.
Compute multiple sequence alignments from partition function posterior probabilities.
Generate sequence logos from DNA and protein sequences.
Identify serial repeats (tandem repeats) in DNA sequences.
Use to detect remote evolutionary relationships between protein families.