$ formatdb -i Lycopersicon_esculentum.fasta -p F -o T
$ blastall -p blastn -F T
-d ./Lycopersicon_esculentum.fasta -i ./Lycopersicon_hirsutum.fasta
-o ./Lycopersicon_hirsutum_vs_Lycopersicon_esculentum.blastn
-e 1e-20 -v 24 -b 24 -I T &
$ blastall -p blastn -F T
-d ./Lycopersicon_esculentum.fasta -i ./Lycopersicon_pennellii.fasta
-o ./Lycopersicon_pennellii_vs_Lycopersicon_esculentum.blastn
-e 1e-20 -v 24 -b 24 -I T &
It takes several hours to finish BLASTN run with these datasets.