Molecular Systematics of Nematodes - Russian Journal of Nematology

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Blast (Sequence Similarity Search) The graphic display • Your query sequence in on the top • Each bar represents the portion of another sequence similar to your query sequence • Red bars indicate the most similar sequences, pink bars indicate matches that are a bit less good, and green bars indicate matches that are not impressive at all. Blue and black hits (not here) are bad hits The hit list Each line contains four important features: • The sequence accession number and the names: this hyperlink takes you to the database entry that contains this sequence • Description • The bit score: a measure of the statistical significance of the alignment. The higher the bit score, the more similar the two sequences. Matches below 50 bits are very unreliable • The E-value (the expectation value): by estimating the number of times you could have expected such a good much only by chance. The lower the E-value, the more similar the sequences. If the E-value is less than 1 X 10 -50 ,the hit is very similar to the query sequence and is very likely to be evolutionarily related.
GenBank 1. Locus gives us the locus name 2. Definition provides a short definition of the gene 3. Accession lists the accession number, a unique identifier within and across various databases. 4. Source divulges the common name of the relevant organism to which the sequence belongs 5. Organism gives a more complete identification of the organism, complete with its technical (!!!) taxonomic classification 6. Reference introduces a section ehere the credits for the sequence determination are given 7. Features describe precisely the gene regions and the associated biological properties Select FASTA in Display window!
Page 1 and 2: Molecular Systematics of Nematodes
Page 3 and 4: GenBank
Page 5 and 6: GenBank from 1982 to the present, t
Page 7 and 8: GenBank
Page 9 and 10: GenBank PubMed: Allows searching by
Page 11 and 12: GenBank Nucleotide Database: The nu
Page 13 and 14: GenBank Taxonomy Browser is… brow
Page 15 and 16: Blast (Sequence Similarity Search)
Page 17: Blast (Sequence Similarity Search)
Page 21 and 22: TreeBase TreeBASE is a relational d
Page 23: Useful databases for nematologists

Molecular Systematics of Nematodes - Russian Journal of Nematology

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