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Eric Fournier
Can you please specify whether it is the Multiple Alignment Format or the Mutation Annotation Format that you are interested in.
Sir, Here MAF is Multiple Alignment Format. I want to study Blocks conserved using Threaded Block Aligner(TBA). Please Help.
Thanks
From the MultiZ and TBA documentation (see http://www.bx.psu.edu/miller_lab/) the usual usage of TBA starts with a step that uses BLASTZ to generate lav files which are converted into a MAF files to use as input to 'tba'. What is the reason that you want to skip this step?
If you have plain old fasta sequences, see Hamish's comment. If you have FASTA -alignments- and you absolutely want to convert those directly to MAF, there is a branch of biopython which has a MAF reader/writer. Thus you could use Bio.AlignIO to read in your FASTA alignment then write it back out in the MAF format.