Anton
V.
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cheminformatics
FASTA Parse Tree Viewer
FASTA Parse Tree Viewer
Fasta file
>seq1 MSFSTKPLDMATWPDFAALVERHNGVWGGCWCMAFHAKGSGAVGNREAKEARVREGSTHAALVFDGSACVGWCQFGPTGE LPRIKHLRAYEDGQAVLPDWRITCFFSDKAFRGKGVAAAALAGALAEIGRLGGGTVESYPEDAQGRTVAGAFLHNGTLAM >seq2 MKAIDLKAEEKKRLIEGIQDFFYEERNEEIGIIAAEKALDFFLSGVGKLIYNKALDESKIWFSRRLEDISLDYELLYK >seq3 MTISRVCGSRTEAMLTNGQEIAMTSILKSTGAVALLLLYTLTANATSLMISPSSIERVAPDRAAVFHLRNQMDRPISIKV RVFRWSQKGGVEKLEPTGDVVASPISAQLSPNGNRAVRVVRVSKEPLRSEEGYRVVIDEADPTRNTPEAESLSARHVLPV LFRPPDVLGPEIELSLTRSDGWLMLVVENKGASRLRRSDVTLAQGSAGIARREGFVGYVLPGLTRHWRVGREDSYSGGIV TVSANSSGGAIGEQLVVSGR
1
>seq1
2
MSFSTKPLDMATWPDFAALVERHNGVWGGCWCMAFHAKGSGAVGNREAKEARVREGSTHAALVFDGSACVGWCQFGPTGE
3
LPRIKHLRAYEDGQAVLPDWRITCFFSDKAFRGKGVAAAALAGALAEIGRLGGGTVESYPEDAQGRTVAGAFLHNGTLAM
4
>seq2
5
MKAIDLKAEEKKRLIEGIQDFFYEERNEEIGIIAAEKALDFFLSGVGKLIYNKALDESKIWFSRRLEDISLDYELLYK
6
>seq3
7
MTISRVCGSRTEAMLTNGQEIAMTSILKSTGAVALLLLYTLTANATSLMISPSSIERVAPDRAAVFHLRNQMDRPISIKV
8
RVFRWSQKGGVEKLEPTGDVVASPISAQLSPNGNRAVRVVRVSKEPLRSEEGYRVVIDEADPTRNTPEAESLSARHVLPV
9
LFRPPDVLGPEIELSLTRSDGWLMLVVENKGASRLRRSDVTLAQGSAGIARREGFVGYVLPGLTRHWRVGREDSYSGGIV
10
TVSANSSGGAIGEQLVVSGR
11
Parse tree
R
sequence:Sequence
R
section:Section
R
descriptionline:Descriptionline
T
DESCRIPTIONLINE:">seq1\n"
R
section:Section
R
sequencelines:Sequencelines
T
SEQUENCELINE:"MSFSTKPLDMATWPDFAALVERHNGVWGGCWCMAFHAKGSGAVGNREAKEARVREGSTHAALVFDGSACVGWCQFGPTGE\n"
T
SEQUENCELINE:"LPRIKHLRAYEDGQAVLPDWRITCFFSDKAFRGKGVAAAALAGALAEIGRLGGGTVESYPEDAQGRTVAGAFLHNGTLAM\n"
R
section:Section
R
descriptionline:Descriptionline
T
DESCRIPTIONLINE:">seq2\n"
R
section:Section
R
sequencelines:Sequencelines
T
SEQUENCELINE:"MKAIDLKAEEKKRLIEGIQDFFYEERNEEIGIIAAEKALDFFLSGVGKLIYNKALDESKIWFSRRLEDISLDYELLYK\n"
R
section:Section
R
descriptionline:Descriptionline
T
DESCRIPTIONLINE:">seq3\n"
R
section:Section
R
sequencelines:Sequencelines
T
SEQUENCELINE:"MTISRVCGSRTEAMLTNGQEIAMTSILKSTGAVALLLLYTLTANATSLMISPSSIERVAPDRAAVFHLRNQMDRPISIKV\n"
T
SEQUENCELINE:"RVFRWSQKGGVEKLEPTGDVVASPISAQLSPNGNRAVRVVRVSKEPLRSEEGYRVVIDEADPTRNTPEAESLSARHVLPV\n"
T
SEQUENCELINE:"LFRPPDVLGPEIELSLTRSDGWLMLVVENKGASRLRRSDVTLAQGSAGIARREGFVGYVLPGLTRHWRVGREDSYSGGIV\n"
T
SEQUENCELINE:"TVSANSSGGAIGEQLVVSGR\n"
T
"<EOF>"
FASTA Parse Tree Viewer
See also
PDB to FASTA
- Extract protein/nucleotide sequences from PDB files.
FASTQ to FASTA
- Convert FASTQ files to FASTA format.
ABI to FASTA
- Convert AB1 files (Applied Biosystems/ABI trace files) to FASTA format.
GenBank to FASTA
- Convert GenBank flat files to FASTA format.
Sequence Logo Generator
- Create sequence logos from FASTA alignments.
Sequence Alignment Viewer
- Open FASTA files in the browser.
What is FASTA and how is it used?
- Learn about the FASTA format and its applications.
FASTA Editor
- A simple online editor for biological sequences in the FASTA format.
The RDF model of the Gene Ontology, demystified
- An outline of the structure of the Gene Ontology RDF graph and ways to query it.
BLAST WASM (In-browser NCBI BLAST)
- Compiling the BLAST sequence search/alignment tool to WASM.
DESeq2 in the browser
- Running DESeq2 in the browser.
Phylogenetic Tree Builder
- Reconstruct phylogenetic trees from protein or DNA/RNA sequence alignments.
Genome Browser
- Explore the human genome.
Phylogenetic Tree Editor
- An online visual editor for phylogenetic trees.
Plasmid Map Generator
- A tool to generate plasmid maps from GenBank files.
NCBI Taxonomy Browser
- A simple tool for viewing the NCBI taxonomy tree.
Newick Parse Tree Viewer
- View the parse trees of Newick strings.
Scalable genomic alignment with Progressive Cactus
- How progressive alignment makes it possible to efficiently align hundreds to thousands of large genomes.
The ambitious challenge of finishing the human genome
- Generating a complete human genome sequence, chromosome by chromosome.
WikiPathways: A Wikipedia for biological pathways
- An overview of the collaboratively edited structured pathway encyclopedia.
Bioinformatics Crossword
- A daily crossword puzzle for bioinformatics terms.
FASTQ Editor
- A simple online editor for biological sequences in the FASTQ format.
Newick Editor
- A simple online editor for phylogenetic trees in the Newick format.
PDB Editor
- A simple online editor for Protein Data Bank (PDB) files.
GenBank Flat File Editor
- A simple online editor for the GenBank flat file format.
Clustal Editor
- A simple online editor for Clustal multiple sequence alignment files.
PDBx/mmCIF Editor
- A simple online editor for PDBx/mmCIF files.
EMBL Flat File Editor
- A simple online editor for the EMBL flat file format.
Awesome bioinformatics
- A curated list of awesome links, tutorials, and resources on bioinformatics and related topics.
Made by Anton Vasetenkov in Auckland, New Zealand.
Email
me if you want to discuss a project.