[BioPython] Sequences and alignments

[Ramon Crehuet]

Dear all,
I have done an alignment with TM align and now I need to compare some 
numerical data associated to each structure residue by residue, 
according to the alignment. Imagine I have an array of the B-factor of 
each C_alpha and want to compare these values for equivalent residues, 
according to the alignment.
    I am quite new to the subject of alignments and don't know how to 
deal with this data. I've looked at the biopython documentation but I 
can't find any hint.
    Ideally I would like to be able to iterate along the alignment, but 
is that possible? I'm sure this raises many points on how to treat gaps, 
etc. but I was wondering if somebody has some experience on that.
Cheers,
Ramon