Introduction of Command Line (2)

1. Download the Arabidopsis Genome.

https://www.arabidopsis.org/download_files/Genes/TAIR10_genome_release/TAIR10_chromosome_files/TAIR10_chr_all.fas.gz

2. Unzip/Decompress the file,

3. See What the genome looks like.

4. Count the number of chromosomes.

5. Download the Protein Sequences.

https://www.arabidopsis.org/download_files/Sequences/Araport11_blastsets/Araport11_pep_20220914.gz

Introduction to Blast.

6. Loading the program "Blast"

Download the Zebrafish protein sequences.

curl -o zebrafish.1.protein.faa.gz -L https://osf.io/68mgf/download

7. Make database for blast.

8. Run blast to compare "mgProteome.fasta" peptide sequence to Zebrafish database.

9. Discuss the results.

10. Run the same commands using program "Diamond".