Sequence Analysis Tools

Alignment of two DNA, RNA or protein sequences - http://insilico.ehu.es/align/ This tool will align your DNA RNA or protein sequences. - [Read more]

Basic Melting Temperature (Tm) Calculation - http://insilico.ehu.es/tm.php This tool will calculate the basic melting temperature Tm. - [Read more]

BCM Search Launcher - http://searchlauncher.bcm.tmc.edu/ Launcher is an on-going project to organize molecular biology-related search and analysis services available on the WWW by function by providing a single point-of-entry for related searches. - [Read more]

CELLO v.2.5: subCELlular LOcalization predictor - http://cello.life.nctu.edu.tw/ CELLO v.2.5: subCELlular LOcalization predictor from Molecular Bioinformatics Center, National Chiao Tung University. As described in: (1) Yu CS, Lin CJ, Hwang JK: Predicting subcellular localization of proteins for Gram-negative bacteria by support vector machines based on n-peptide compositions. Protein Science 2004, 13:1402-1406. (2) Yu CS, Chen YC, Lu CH, Hwang JK: Prediction of protein subcellular localization. Proteins: Structure, Function and Bioinformatics 2006, (in press). - [Read more]

CLEANER - http://www.justbio.com/cleaner/index.php Sequence CLEANER allows you to clean your sequences from unwanted text marks and spaces. - [Read more]

Coloured Sequences for Presentations - http://insilico.ehu.es/create_image/ This tool will create an image of your sequence - [Read more]

Computing Tag SNPs Tool - http://tagzilla.nci.nih.gov/ This program tags SNPs based on pairwise linkage disequilibrium that takes into numerous practical constraints. - [Read more]

Determination of Molecular Weight - http://insilico.ehu.es/mini_tools/molecular_weight/ The aim of this tool is to help calculate Molecular Weight of bands in gels. A regression curve (Rf versus logMw of markers) will be calculated - [Read more]

Discriminatory Power Calculator - http://insilico.ehu.es/mini_tools/discriminatory_power/ The Discriminatory Power (D) is the average probability that the typing system will assign a different type to two unrelated strains randomly sampled in the microbial population of a given taxon. - [Read more]

Human DNA Search Sequence Tool - http://genome.ucsc.edu/cgi-bin/hgBlat?command=start&org=Human&db=hg18&hgsid=99373706 BLAT Search Genome is a tool from UCSC. It works on DNA and is designed to quickly find sequences of 95% and greater similarity of length 40 bases or more. - [Read more]

Human Gene Sorter Tool - http://genome.ucsc.edu/cgi-bin/hgNear?org=Human&db=hg18&hgsid=99373706 The human gene sorter tools, allows you to display a sorted table of genes that are related to one another. The relationship can be one of several types, including protein-level homology, similarity of gene expression profiles, or genomic proximity. - [Read more]

In silico simulation of molecular biology experiments - http://insilico.ehu.es/translate/ In silico simulation program for translating DNA to protein - [Read more]

JustBio TRANSLATOR - http://www.justbio.com/translator/index.php The JustBio Translator translates your DNA sequences from 1 to 6 phases into formated outputs. - [Read more]

Motif Scanner - http://hits.isb-sib.ch/cgi-bin/PFSCAN Motif scanner is a tool that allows you to find all known motifs that occur in a sequence. This scanner lets you paste a protein sequence, select the collections of motifs to scan for, and launch the search. - [Read more]

Peptide pl and MW Calculator - http://www.fmi.ch/members/reto.portmann/pepeval.html Simple to use calculator for your peptide pl modifications and molecular weight. - [Read more]

PROTCALC - http://www.justbio.com/protcalc/index.php PROTCALC allows you to determine statistically, and theoretically the molecular weight and extinction data of your protein sequences. - [Read more]

Protein sequence analysis - http://www.biochem.ucl.ac.uk/bsm/dbbrowser/jj/prefacefrm.html Protein sequence analysis site with plenty of information and web practical guides. - [Read more]

Rare Codons' Search Program - http://www.molbiol.ru/eng/scripts/01_11.html Rare Codons' Search Program allows you to find rare codons within the coding regions of your proteins. - [Read more]

Read a ClustalW (aln) or GCG PileUp (msf) alignment and write a Phylip usable format - http://insilico.ehu.es/tophylip/ This tool converts ClustalW or Pileup, nucleotide or amino acid alignments into a Phylip input format. Additionally, it removes positions at the beginning and end of the alignment on request, such as those for which not all positions are available in all sequences. - [Read more]

Sequence Analysis Tools - http://www.sequenceanalysis.com/ Site dedicated to sequenc analysis. - [Read more]