Reference
Searching
1. LookUp - Identifies sequences in
sequence database (name, accession
number,
author, et al..)
2. Names - Identifies sequences
entries by name.
3. StringSearch - Identifies sequences by
character patterns.
Sequence
Searching
1. BLAST - Finds sequences in a
database that are similar to a query sequence (ver.2.0)
2. FastA - Search for similarity
sequences of the same type
3. FastX - Search for similarity
sequences between a nucleotide sequence and protein
database, taking frameshifts into account.
4. FindPatterns - Identifies sequences with
short sequence pattern
5. FrameSearch - Search protein sequences for
similarity to nucleotide query sequences, or
nucleotide sequences for similarity to protein query sequences.
6. Motifs - Search through proteins for
the patterns defined in the PROSITE.
7. MotifSearch - Use a set of profiles search a
database for new sequences.
8. NetBLAST - Search database maintained
at NCBI
9. ProfileSegments - Make optimal
alignments found by ProfileSearch.
10. ProfileSearch - Use a profile to search the
database for new sequence.
11. Segments - Aligns and
displays the segments found by WordSearch.
12. Ssearch - Does a rigorous
Smith-Waterman search for similarity
13. TFastA - Search for similarity
sequences between a protein sequence and nucleotide
database
14. TFastX - Search for similarity
sequences between a protein sequence and nucleotide
database, taking frameshifts into account.
15. WordSearch - Identifies
sequences in the database that share large numbers of common
words