[BiO BB] length OR similarity

[Daniel Xavier de Sousa]

Hi people,


 


Please, I have one doubt.


 


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


 


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)


 


AND


 


=> Extend alignment both
directions


 


Thanks,


Daniel Xavier


 
*****************************************************************
*        Daniel Xavier de Sousa                    *
*        Mestrando em Informática - PUC-Rio        *
*        E-MAIL : dsousaARROBAinf.puc-rio.br       *
*        Fone   : +55 21 35271500 - 4543           *
****************************************************************



__________________________________________________
Fale com seus amigos  de graça com o novo Yahoo! Messenger 
http://br.messenger.yahoo.com/