This repository contains Python scripts for use in bioinformatics tasks and projects, such as DNA/RNA sequence management.

• Download_GenBank_Sequences.py is a Python script that uses the Biopython library to fetch nucleotide sequences from the NCBI database (GenBank) using a list of accession numbers. For each accession number, the script retrieves the corresponding GenBank record, saves the sequence in FASTA format to a local file named after the accession number. This allows for the automated download and conversion of nucleotide sequences from GenBank to FASTA format.

• Extract_specific_region_from_alignment.py is a Python script that uses the Biopython library to process a multiple sequence alignment in FASTA format. The script performs the following tasks:

  • Load the Alignment: Reads the aligned sequences from a file in .fasta format.
  • Define Region of Interest: Specifies the start and end positions of the region to be extracted from the alignment.
  • Extract Sub-alignment: Creates a new alignment containing only the specified region of each sequence.
  • Save Sub-alignment: Writes the extracted sub-alignment to a new FASTA file named aligned_protein_G.fasta.
  • This allows for focusing on and saving a specific region of interest from a multiple sequence alignment.

• Nucleotide_to_aminoacid.py is a Python script that uses the Biopython library to translate aligned nucleotide sequences into their corresponding amino acid sequences. The script performs the following tasks:

  • Load the Nucleotide Alignment: Reads aligned nucleotide sequences from a file named aligned_nucleotide_sequences.fasta.
  • Translate to Amino Acids: Translates each nucleotide sequence into its corresponding amino acid sequence, stopping at the first stop codon.
  • Create SeqRecord Objects: Stores the translated amino acid sequences in SeqRecord objects, retaining the original sequence IDs.
  • Save Aligned Amino Acid Sequences: Writes the translated amino acid sequences to a new FASTA file named aligned_protein_sequences.fasta.
  • This allows for converting aligned nucleotide sequences into their protein counterparts and saving the result in a FASTA file.