Hmm

Search mode:
HMMPFAM: Compare protein queries against the HMM profile database
(consult the list of available HMM profiles)
.
HMMSEARCH: Compare HMM profiles against a sequence database.
For HMMPFAM searches, enter here your sequence:
For HMMSEARCH, upload profile:
Options:
Search program:
Set E-value cutoff to:
Search domain:

  
HMMER references:
  • Eddy, S.R. 1996 Hidden Markov models. Curr. Opin. Struct. Biol. 6: 361-365.
  • Eddy, S.R. 1998. Profile hidden Markov models. Bioinfomatics 14: 755-763.
  • HMMER is accesible at (http://hmmer.janelia.org).



Welcome to the Gypsy Database (GyDB) an open editable database about the evolutionary relationship of viruses, mobile genetic elements (MGEs) and the genomic repeats where we invite all authors to contribute with their knowledge to improve and expand the topics.
Cite this project:

Llorens, C., Futami, R., Covelli, L., Dominguez-Escriba, L., Viu, J.M., Tamarit, D., Aguilar-Rodriguez, J. Vicente-Ripolles, M., Fuster, G., Bernet, G.P., Maumus, F., Munoz-Pomer, A., Sempere, J.M., LaTorre, A., Moya, A. (2011) The Gypsy Database (GyDB) of Mobile Genetic Elements: Release 2.0 Nucleic Acids Research (NARESE) 39 (suppl 1): D70-D74 doi: 10.1093/nar/gkq1061

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