Sequence Analysis

Perform comprehensive DNA and protein analysis including statistical calculations, pattern searching, sequence alignment...

22
Tools
Tags:
DNA(15)Protein(7)Expression(1)RNA(1)Sequence(1)
CpG Islands
4.4
Report potential CpG island regions using 200 bp windows and Obs/Exp ≥ 0.6 with GC ≥ 50%.
DNA
33,453 uses
Fuzzy Search DNA
4.5
Locate approximate matches between a DNA target and query sequence using customizable scoring penalties.
DNA
3,453 uses
ORF Finder
4.5
Identify open reading frames across selected reading frames and strands while accounting for custom genetic codes.
DNA
34,534 uses
Protein Pattern Find
4.3
Search for regex patterns in protein sequences and locate all matches.
DNA
23,324 uses
Protein Isoelectric Point
4.3
Calculate the theoretical pI (isoelectric point) for protein sequences. Predict protein charge at different pH values.
Protein
34,534 uses
Protein GRAVY
4.5
Calculate the GRAVY (Grand Average of hydropathy) value for protein sequences.
Protein
23,423 uses
Fuzzy Search Protein
4.0
Locate approximate protein matches using PAM or BLOSUM scoring matrices with adjustable gap penalties.
Protein
7,688 uses
Codon Usage
4.4
Calculate codon counts, per-thousand usage, and synonymous codon fractions for DNA sequences.
DNA
34,564 uses
Codon Plot
4.7
Generate an ASCII codon plot using codon frequency data to highlight usage bias across a sequence.
DNA
67,867 uses
Multi Rev Trans
4.5
Reverse translate protein alignments using codon usage tables and highlight positional degeneracy.
Protein
23,422 uses
DNA Pattern Find
5.0
Locate DNA sequences that match a regular-expression pattern on both the direct and reverse-complement strands.
DNA
8,675 uses
Pairwise DNA Alignment
4.5
Perform optimal global alignment of two DNA sequences using a match/mismatch scoring matrix and configurable gap penalties.
DNA
35,345 uses
Pairwise Align Protein
4.4
Perform optimal global alignment of two protein sequences using configurable scoring matrices and gap penalties.
Protein
34,224 uses
Pairwise Align Codons
4.5
Perform optimal global alignment of two coding sequences using a codon substitution matrix and configurable gap penalties.
DNA
46,456 uses
Identity and Similarity
4.3
Calculate pairwise identity and similarity percentages for aligned protein sequences.
Protein
34,543 uses
Restriction Digest
5.0
Cleave DNA sequences with one, two, or three restriction enzymes.
DNA
49,372 uses
Restriction Summary
5.0
Find and report all restriction enzyme cut sites in DNA sequences.
DNA
2,142 uses
Mutate for Digest
4.4
Identify minimal nucleotide substitutions that create a chosen restriction site while monitoring protein translations.
DNA
46,456 uses
PCR Products
4.4
Generate PCR products from template and primer sequences. Find primer annealing sites and compute product sizes.
DNARNA
43,534 uses
Translate
5.0
Convert DNA sequences to protein using the genetic code.
DNAProtein
23,442 uses
DNA Sequence Alignment
5.0
Perform global alignment of two DNA sequences using Needleman-Wunsch algorithm
DNASequence
89,673 uses
ORF Finder V2
5.0
Find open reading frames in nucleotide sequences and view protein translations
Expression
89,675 uses
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