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	FASTA Manual
		fasta is used to compare a protein or DNA sequence to all of the entries in a sequence library.
		FASTA and SSEARCH use simple linear regression against the the log of the library sequence length to calculate a normalized "z-score" with mean 50, regardless of library sequence length, and variance 10.
		For FASTA, if optimized scores are calculated for each sequence in the database (-o option), the agreement between the actual distribution of "z-scores" and the expected distribution based on the length dependence of the score and the extreme value distribution is usually very good.
	rcr-www.med.nyu.edu /rcr/fastaman.html (2315 words)

	SGD Help: FASTA Searches
		FASTA is a program that allows one to compare a query sequence to either a protein or a DNA sequence database (Pearson and Lipman, 1988).
		FASTA uses a fast search to initially identify sequences with a high degree of similarity to the query sequence and then conducts a second comparison on the selected sequences.
		FASTA is slower than BLAST, but it can be more sensitive because it tolerates gaps in the aligned sequences.
	www.yeastgenome.org /help/fasta.html (446 words)

	FASTA Programs (Site not responding. Last check: 2007-10-13)
		FASTA Sequence Comparison at the U. of Virginia
		The FASTA web interface has been simplified, with new WWW pages.
		While FASTA and TFASTA report a single alignment between two sequences, LALIGN will report several sequence alignments if there are several similar regions.
	fasta.bioch.virginia.edu (478 words)

	Välsignelserna av att fasta på rätt sätt
		Fasta kan hjälpa oss att övervinna egna fel och synder.
		Att fasta som familj kan öka kärleken och uppskattningen bland familjemedlemmarna och minska stridigheterna i en familj, eller också kan vi fasta som makar för att stärka vårt äktenskap.
		Om syftet med vår fasta är att öka vår kärlek till vår nästa och övervinna vår själviskhet, vår stolthet, och att inte längre fästa våra hjärtan vid det som hör den här världen till, söker vi verkligen ”bryta sönder alla ok”.
	www.lds.org /conference/talk/display/0,5232,89-16-496-16,00.html (1393 words)

	FastA+
		FastA+ does a Pearson and Lipman search for similarity between a query sequence and a group of sequences of the same type (nucleic acid or protein).
		FastA+ accepts a single protein sequence or a single nucleic acid sequence as the query sequence.
		FastA does a Pearson and Lipman search for similarity between a query sequence and a group of sequences of the same type (nucleic acid or protein).
	www.csit.fsu.edu /gcg/fasta+.html (2295 words)

	Similarity: FASTA
		FASTA is a powerful tool for scanning databases to find sequences that are similar to a query sequence.
		FASTA essentially calculates the sum of the dots along each diagonal.
		A local FASTA search (for similarity of a single sequence to the entire GenBank non-redundant database) typically take about 4 minutes and rarely more than 10 minutes.
	www.med.nyu.edu /rcr/rcr/course/sim-fasta.html (828 words)

	[No title]
		One of the most common file formats used in biology is Fasta format, thus converting into this format for storage of sequences or preparation for input into a program is very common.
		Fasta format has become so popular because it is very simple.
		Although Fasta format is simple, it can also be difficult to deal with because there are no standards for how information about a sequence will be presented on the title line.
	www.biopython.org /DIST/docs/cookbook/genbank_to_fasta.html (835 words)

	New matrix
		A sequence in FASTA format begins with a single-line description, followed by lines of sequence data.
		The description line is distinguished from the sequence data by a greater-than (">") symbol in the first column.
		Blank lines are not allowed in the middle of FASTA input.
	trantor.bioc.columbia.edu /Target_Explorer/fasta.html (68 words)

	FastA (Site not responding. Last check: 2007-10-13)
		FastA accepts a single protein sequence or a single nucleic acid sequence as the query sequence.
		FastA is one of the few programs in the Wisconsin Package that can take more than a few minutes to run.
		The FASTA program family (FastA, TFastA, FastX, TFastX, and SSearch) was written by Professor William Pearson of the University of Virginia Department of Biochemistry (Pearson and Lipman, Proc.
	helix.nih.gov /docs/gcg/fasta.html (5141 words)

	FASTA
		FASTA compares pairs of protein or DNA sequences as well as comparing a single protein or DNA sequence to a database or library.
		FASTA completes searches very quickly and can be run locally as well as on a server.
		A demonstration of FASTA is being given by William Pearson.
	workshop.molecularevolution.org /software/fasta (121 words)

	[No title]
		Because the alignment is constrained to a known region of similar sequence, FASTA is much faster than performing a complete dynamic programming alignment between query sequence and all possible targets.
		FASTA is more sensitive than BLAST especially when query sequences is more repetitive.
		FASTA compare a DNA sequence to a DNA database and a protein sequence to protein database.
	nas.cl.uh.edu /kumar/Fasta.ppt (1727 words)

	Using FASTA on Biowulf
		FASTA on Biowulf is intended for running a large number of sequence files, such as hundreds or thousands of query sequences, against the databases.
		When analyzing a large number of sequences with fasta, it is imperative that the database fit entirely within the memory of a given node.
		Fasta jobs should be submitted with the appropriate node designation, depending on the size of the target database.
	biowulf.nih.gov /apps/fasta.html (3735 words)

	Islam på svenska \| www.detgoda.se \| Islams grunder
		Den som ser månens nytändning skall fasta månaden ut. Men den som är sjuk eller på resa [skall fasta därefter] under motsvarande antal dagar.
		Den som bryter sin fasta under Ramadân utan någon av de ursäkter som Gud skulle ursäkta honom med, för honom skulle inte ens en evig fasta - om han skulle göra det - kunna täcka denna dag.
		Fasta efter att ni har sett den [nymånen] och avsluta fastan [vid slutet av månaden] då ni har sett den.
	www.detgoda.se /Grunder/Pelare/Fastan_under_ramadan.html (1095 words)

	Fasta (VIBE API)
		A bean for encapsulating a defline and the content of a FASTA record.
		Access to the content of a FASTA record (such as the nucleotide string).
		Generates a typical FASTA string view of the record where the defline follows a ">", followed by a newline, and then the content.
	www.incogen.com /public_documents/vibe/sdk-dev/docs/javadocs/com/incogen/commons/model/sequence/Fasta.html (137 words)

	FromFastA
		FastA format may maintain many sequences in one file; in such a case FromFastA writes many output files, one for each sequence in the FastA file.
		The documentation line from the FastA input file(s) is preserved in the GCG output file(s).
		FastA format is not rigorously defined, so FastA files from different sources may not have exactly the same format.
	www.scs.uiuc.edu /documentation/gcgmanual/fromfasta.html (995 words)

	FastA/Pearson Format Description
		FastA is one of the simplest formats for representing biopolymer sequences.
		A sequence in FastA format is practically consisted of two parts: the first line (description line) that contains the name of the sequence (unique identifier) and some comments (optional); and the remaining lines, which contain the DNA or protein sequence itself.
		A FastA file can contain more than one sequence, each of which should start with the ">" symbol.
	biodev.hgen.pitt.edu /FastA_description.html (336 words)

	SGD Help: FASTA Results
		The results of a FASTA search are presented in sections.
		The "Gene/Sequence resources" link can be used to retrieve the database sequences that are similar to the query sequence, as well as to obtain a variety of other information and displays for those similar sequences.
		FASTA results can be accessed by entering a sequence of more than 8 nucleotides or amino acids long in the
	www.yeastgenome.org /help/fastaresults.html (404 words)

	Welcome to FASTA
		FASTA (Foam and Steel Technology Associates) is a Disabled American Veteran Company.
		Fasta assists in the merger of manufacturer, builder, contractor and architect to create structural framing and insulation into wall, roof and floor systems for residential and commercial build projects.
		FASTA offers the opportunity to save time, money and the environment.
	www.fastainc.com (65 words)

	Noah Hoffman Software
		For example, here's all the code you need to translate a fasta format file of nucleotide sequences (removing gap characters first), and get rid of sequences with stop codons that aren't at least 100 amino acids long.
		Writes sequences in fasta format to a file in which each name and sequence string are contained on a single line (names and sequences are tab-delimited).
		Nucleotide sequences are supplied either as one or more fasta format files or in a single nexus format file.
	www.unc.edu /~nghoffma/software.html (1990 words)

	GWFASTA HELP AND DOCUMENTATION (Site not responding. Last check: 2007-10-13)
		The server extracts the sequences in fasta format which the clustalW program recognizes and outputs two files; an alignment file which is displayed on the screen in PIR format and a tree file which can be viewed on-line too with a click of a button.
		MView is a tool for converting the results of a sequence database search (FASTA, FASTA, etc.) into the form of a coloured multiple alignment of hits stacked against the query.
		Genome Wide FASTA against genome of various Prokaryotic or Eukaryotic organisms or their proteome are summarized in a table.
	www.imtech.res.in /raghava/gwfasta/help.html (1480 words)

	LAGAN Toolkit User Manual
		The input to LAGAN consists of two sequence files, in FASTA format.
		The input to LAGAN consists of several sequence files, in FASTA format.
		A file in FASTA format starts with a header line, which starts with a ">" sign, folowed by the sequence name (one word, no spaces) and any comments.
	lagan.stanford.edu /lagan_web/manual.shtml (1057 words)

	FASTA Description
		Local documentation for FASTA is available on-line and man pages are available for fasta3, fastf3 and prss3.
		FASTA generally should be run in the batch queue system.
		Pearson (1990) "Rapid and Sensitive Sequence Comparison with FASTP and FASTA" Methods in Enzymology 183:63-98.
	www.csb.yale.edu /userguides/seq/fasta/fasta_descrip.html (146 words)

	FASTA Support Info (Site not responding. Last check: 2007-10-13)
		The FASTA bioinformatics tool, developed by W.R. Pearson at the University of Virginia (1988), provides a quick search and local alignment of sequences contained within a specified database.
		Various researchers have used different scoring matrices to calculate the similarity of proteins with the FASTA (or BLAST) algorithm based on substitutions and values for amino acids, various gap penalties and other criteria, depending on the purpose of the searches.
		The query sequence may be entered with or without spacing gaps and numbers in the sequence, or in a typical FASTA format.
	www.allergenonline.com /support.asp (1162 words)

	FASTA (Site not responding. Last check: 2007-10-13)
		FASTA tries to find patvhes of regional similarity, rather than trying to find the best alignment between your entire query and an entire database sequence.
		FASTA is not guaranteed to find the best alignment between your query and the database; it may miss matches.
		FASTA uses a substitution matrix only for the extension phase.
	arep.med.harvard.edu /seqanal/fasta.html (211 words)

	FASTA
		The fasta program package contains many programs for searching DNA and protein databases and one program (prss) for evaluating statistical significance from randomly shuffled sequences.
		If you type 'fasta' at the Helix prompt or after initializing GCG, you will be running the standalone Fasta.
		fasta: fasta does a Pearson and Lipman search for similarity between a query sequence and a group of sequences of the same type (nucleotide or protein).
	helix.nih.gov /apps/bioinfo/fasta.html (1096 words)

	FASTA and BLAST Database Searches
		Perform a database search on the Sir2 protein to determine if other homologues exist and if structural information is known about that protein.
		Figure 7.1 in the same text illustrates a way in which one can represent which sequences are found as matches based on what the query sequence is. Sketch one of these indicating the similarity you found by comparing the two searches.
		Again, obtain the sequence by finding it in the search results as before, display it in FASTA format, and paste it into the window for the search sequence.
	ludwig.chem.wesleyan.edu /~model/chem389/Database.htm (1689 words)

	FastA Output
		The standard alignment formats of the FastA program family are difficult to parse, and so it has been hard to extract the alignment information from the output file for further processing.
		FastA will try to provide about 30 residues on either side of the actual aligned region if the alignment is in the middle of one or the other sequence.)
		To properly display this alignment, the first P of gtm1_mouse must line up with the first V in GTX2_TOBAC, and the actual aligned region (the region that scores as the best local alignment) starts with the first I in gtm1_mouse (amino acid 3) and the first L (amino acid 6) in GTX2_TOBAC.
	www.uni-duesseldorf.de /URZ/hardware/parallel/local/gcg/gcg11/html/fasta_parsable_output.html (652 words)

	Advanced Bioinformatics - 2006 - Similarity Searching Exercises
		FASTA search page to compare Drosophila glutathione transferase GSTT1_DROME (gi121694) to the PIR1 Annotated protein sequence database.
		(The default scoring matrix for the FASTA programs is BLOSUM50, with gap penalties of -10 to open a gap and -2 for each residue in the gap - e.g.
		FASTA uses the ktup parameter to adjust the sensitivity and speed of the search.
	fasta.bioch.virginia.edu /mol_evol (653 words)

	FastA Output
		This document may be useful for programmers and script writers, but can be skipped by most users of FastA and TFastA.
		FastA's standard alignment formats are difficult to parse, and so it has been hard to extract the alignment information from a FastA output file for further processing.
		All of the parameters specified by two-character tags correspond to values that are presented in other FastA output formats, with the exception of parameters with the
	www.scs.uiuc.edu /documentation/gcgmanual/fasta_parsable_output.html (1106 words)

	[No title]
		Source for this service, including modifications for SRS and FastA source, are available at .
		The main change to FastA software is the addition of sequence library type code that lets FastA use the index files (described in SRS section) to read only specified sequence records from a set of data library files.
		For using with Fasta, this subset library type is defined as #12, so when Fasta/Tfasta ask for a library, you provide the name of the subset indices file (without suffix), followed by the library type number (12), as in
	www.ibiblio.org /pub/academic/biology/molbio/search/subsets/SRS-Fasta-notes.html (1023 words)

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