You just need to do:
#!/bin/bash
count=$(cat last_queries.txt | wc -l)
$(perl test.pl test2 $count)
However, if you want to call your Perl command later, and that’s why you want to assign it to a variable, then:
#!/bin/bash
count=$(cat last_queries.txt | wc -l)
var="perl test.pl test2 $count" # You need double quotes to get your $count value substituted.
...stuff...
eval $var
As per Bash’s help:
~$ help eval
eval: eval [arg ...]
Execute arguments as a shell command.
Combine ARGs into a single string, use the result as input to the shell,
and execute the resulting commands.
Exit Status:
Returns exit status of command or success if command is null.