FASTA finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches.
http://fastademo.bioch.virginia.edu/
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UVA FASTA Server | fastademo.bioch.virginia.edu Reviews
https://fastademo.bioch.virginia.edu
FASTA finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches.
fastademo.bioch.virginia.edu
Convert HMMs and Profiles
https://fastademo.bioch.virginia.edu/fasta_www2/chaps.cgi
CHAPS - Convert HMMs And Profiles. Get Help with CHAPS. Experiment name (no blanks) :. Input sequences (specify multiple alignment status Format): below:. Select multiple alignment file:. Sequences aligned, and in Clustal/MSA format? Help with PSSM values. Text ASN.1 for NCBI/Web (not functional).
FASTA Sequence Comparison
https://fastademo.bioch.virginia.edu/fasta_www2/fasta_www.cgi
Search Databases with FASTA. This page provides searches against comprehensive databases, like SwissProt. Database can be used for small, demonstration searches. The NCBI nr. Database is also provided, but should be your last choice for searching, because its size greatly reduces sensitivity. The best first choice for searching is a genome database from a closely related organism (e.g. RefSeq Human. Page provides searches against selected prokaryotes. Course Announcement: 2013 CSHL Computational Genomics.
FASTA Sequence Comparison
https://fastademo.bioch.virginia.edu/fasta_www2/fasta_www.cgi?rm=select&pgm=fap
Search Databases with FASTA. This page provides searches against comprehensive databases, like SwissProt. Database can be used for small, demonstration searches. The NCBI nr. Database is also provided, but should be your last choice for searching, because its size greatly reduces sensitivity. The best first choice for searching is a genome database from a closely related organism (e.g. RefSeq Human. Page provides searches against selected prokaryotes. Course Announcement: 2013 CSHL Computational Genomics.
UVA FASTA mailing list
https://fastademo.bioch.virginia.edu/fasta_www2/fasta_mail.shtml
Annotation features available for. CHAPS - Convert HMMs and Profiles. FASTA developer mailing list. If you regularly install the latest version of the fasta3 package from faculty.virginia.edu/wrpearson/fasta. You may want to join the fasta list sympa mailing list. I plan to use this list to announce new releases and solicit bug reports. To join the mailing list, go to:. From the lower left of the page, and on the linked page, enter your email address, and press submit.
UVA FASTA Downloads
https://fastademo.bioch.virginia.edu/fasta_www2/fasta_class.shtml
Annotation features available for. CHAPS - Convert HMMs and Profiles. If you are interested in using the FASTA WWW service for teaching a class, please email me ( wrp@virginia.edu. And I can make arrangements for you to use a Beowulf cluster of FASTA servers. Most of the searches in this exercise should be done against a small protein database, e.g. the PIR1. Identifying homologs and non-homologs; effects of scoring matrices and algorithms. Use the FASTA search page. Note that this drosophila glutathione...
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UVA FASTA Server
FASTA Sequence Comparison at the U. of Virginia. Annotation features available for. CHAPS - Convert HMMs and Profiles. Programs find regions of local or global similarity between Protein or DNA sequences, either by searching Protein or DNA databases, or by identifying local duplications within a sequence. Other programs provide information on the statistical significance of an alignment. Like BLAST. Protein-protein Smith-Waterman ( ssearch. Global Protein-protein (Needleman-Wunsch) ( ggsearch.
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