[EMBOSS] EMBOSS cai

[Aidan Findlater]

I'm trying to figure out what the appropriate table for calculating
the CAIs of fission yeast sequences.

The documentation says, "The default codon usage table 'Eyeastcai.cut'
was prepared from a set of S. pombe genes by Peter Rice." If you copy
the example in the documentation (that uses a fission yeast gene with
the Eyeastcai.cut table), you get the same results that they show.

However, if you look at the index of tables in EMBOSS's data
directory, it says that Eyeast_cai.cut is the
"Saccharomyces_cerevisiae original CAI set (Eyeastcai.cut)". The table
that is identified as being fission yeast gives very different
numbers.

Any clarification would be greatly appreciated!

Thanks,

Aidan Findlater