Parsed, simplified alternative codon tables. This repository contains the common NCBI alternative codon tables (with alternative start codons) in a simple format that is easier to parse for quick scripts.

code_info/ contains the codon tables in the most convenient format per code. These files are tab-delimited with self-explanatory columns. Stop codons are indicated with "*" in the "amino_acid" column. Note that for codes 27, 28, and 31, that the amino acid can be either "*" or an actual amino acid, which is indicated with a "/". The "possible_start" column indicates whether a codon can be a possible start codon, and code for M, when they are the initial codon in a sequence.

The codes are also in the original NCBI format in combined tables within combined_table.

I downloaded the (text) ASN.1 format of alternative codon tables (gc.prt) from NCBI (ftp://ftp.ncbi.nih.gov/entrez/misc/data/gc.prt) on March 19th, 2024.

I then converted this to a simple tab-delimited format (output to codon_tables.tsv) using scripts/simplify_codon_asn1.py.

I then split this combined table into individual tables per code (output to code_info/) with scripts/split_codes.py.