Running and Verifying LASTZ

Procedure

1. Use PuTTY to log in to the server as the root user.
2. Run the following command to go to the CASE directory:

   cd /path/to/CASE

3. Run the following commands to decompress the test case packages:

   gzip -d hg38.chr4.fa.gz
   gzip -d galGal3.chr4.fa.gz

4. Run the following command to run the test case:

   time lastz hg38.chr4.fa galGal3.chr4.fa --notransition --step=20 --nogapped --format=maf > hg38_4_vs_galGal3_4-kp7265.maf

5. Run the following command to view hg38_4_vs_galGal3_4-kp7265.maf:

   vim hg38_4_vs_galGal3_4-kp7265.maf

   Figure 1 is an example of the output result.

   Figure 1 Result example