Align long nucleotide repeats with deletion

Question

[Guy]

Hello, I have a case in which I have a reference sequence that looks as such (5 times 'A') -

TAAAAAT

I have a read that has only 4 A's:

TAAAAT

Is it possible to specify to an aligner where I want the deletion to occur?

For example, can I control between the cases of:

T-AAAAT OR TAAAA-T

Thank you very much for the assistance

[GenoMax]

You can always edit the alignment manually but I doubt it is possible to control this automatically.