[BioC] Variable probe binding and its impact on analysis

[Srinivas Iyyer]

Dear group, 
apologies for asking a general question here. Since
many microarray specialists are here, I dared to ask. 

What is the logic and impact of cross hybridizing
probes on data analysis in an agilent platform.  There
are some probes that hybridize to other non-homologous
genes.  If a probe shows with 100% identity to Gene1
(G1) from 1-60 bp length, and it shows good identity
from 4-60 with Gene2.  

will these two genes compete to bind to this probe and
if so will that binding signal be misleading?

Thanks in advance. 

-Srini