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