[EMBOSS] fuzznuc score

[Peter Rice]

Liisa Koski wrote:
> Hello,
> 
> I would like to know how the score is calculated for the fuzznuc results. 
> What is taken into consideration(strand, exact matches, etc?). What does a 
> high score vs lower score mean?

The score in EMBOSS report output is a required field for standard
formats such as GFF.

For fuzznuc the score is the length of the sequence that is found, minus
any mismatches.

Patterns that can match very long sequences can therefore give a very
high score.

Hope this helps,

Peter Rice