[BiO BB] length OR similarity

Daniel Xavier de Sousa danielucg at yahoo.com.br
Thu Apr 12 23:01:28 EDT 2007

Hi people,


Please, I have one doubt.


For same database on BLAST, which spends more time:  length of query OR similarity (contend) of


For example: 

Sequence A is biggest than sequence B. But sequence B is
more similarity than sequence A. 

Which they will spend more time? And, it is the same BLASTP
and BLASTN for this?


This is a relation with:

=> Make lookup table of
“words” for query AND Scan database for hits (word match/seed)




=> Extend alignment both



Daniel Xavier

*        Daniel Xavier de Sousa                    *
*        Mestrando em Informática - PUC-Rio        *
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