a database for Mycobacterium secretome analysis
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It predicts the presence and location of signal peptide cleavage sites in amino acid sequences from different organisms: Gram-positive prokaryotes, Gram-negative prokaryotes, and eukaryotes. The method incorporates a prediction of cleavage sites and a signal peptide/non-signal peptide prediction based on a combination of several artificial neural networks and hidden Markov models.


The SecretomeP 2.0 server produces ab initio predictions of non-classical i.e. not signal peptide triggered protein secretion. The method queries a large number of other feature prediction servers to obtain information on various post-translational and localizational aspects of the protein, which are integrated into the final secretion prediction.


TransMembrane prediction using Hidden Markov Models -- is a program for predicting transmembrane helices based on a hidden Markov model. It reads a FASTA formatted protein sequence and predicts locations of transmembrane, intracellular and extracellular regions.


It predicts the presence of prokaryotic Twin-Arginine Translocation (Tat) signal peptides.


The method is also very sensitive and specific in the detection of secretory signal peptides and in terms of overall accuracy outperforms even SignalP, which is the top-scoring method for the prediction of signal peptides.


The Integrated Microbial Genomes (IMG) system serves as a community resource for comparative analysis and annotation of all publicly available genomes from three domains of life in a uniquely integrated context.


The National Center for Biotechnology Information (NCBI) is part of the United States National Library of Medicine (NLM), a branch of the National Institutes of Health.

WebLogo 3

It is a web based application designed to make the generation of sequence logos as easy and possible. Sequence logos are a graphical representation of an amino acid or nucleic acid multiple sequence alignment developed by Tom Schneider and Mike Stephens.

CAI Calculator 2

CAI is a single value measurement that summarizes the codon usage of a gene relative to the codon usage of a reference set of genes. A higher CAI value usually suggests that the gene of interest is likely to be highly expressed.

codonw 1.4.4

The CodonW application was designed to be a package for codon usage analysis. It was designed to simplify Multivariate Analysis (MVA) of codon usage.Additional analyses of codon usage include investigation of optimal codons, codon and dinucleotide bias, and/or base composition.


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