Regarding functional annotation by Blast2go software, based on the manual, assigning the suitable GO term to the query sequence is defined annotation, so it is GO annotation, right? From the manual, "The Blast2GO annotation algorithm is carried out by applying an annotation rule (AR) on the mapped sequences. The AR uses the highest hit similarity and the evidence code weights (ECw) to calculate an annotation score (AS) for each GO candidate. Once the AS is calculated for each GO, the AR selects the lowest term per branch that lies over a certain threshold (default=55)." Sorry, I read it several times, but I didn't understand the concept of it. Could you please kindly explain to me what is the "evidence code weights (ECw)", and what means, "Once the AS is calculated for each GO, the AR selects the lowest term per branch that lies over a certain threshold (default=55)".
Thanks in davance