Ummm it was discussed here before https://carspiritpk.com/pak-suzuki-alto-sets-another-sales-record/#comment-10138 and even in Japan, the lower trim levels F & VP come with a VVT-less R06A & manual gear. In other words we get the lowest trims here.

It was extensively discussed under the PakWheels articles at launch time:

https://www.pakwheels.com/blog/comparison-pakistani-japanese-suzuki-alto-660cc/#comments
https://www.pakwheels.com/blog/suzuki-alto-660cc-pics-specs-price-revealed/#comments
I totally remember some of the emotional replies which demonstrated how weak the scientific concepts of some of the participants were. Only a few comments are visible on those articles now.

Although the hundreds of articles on PW blog on the same topic keep confusing it as 54 hp while it is clear from PS website that it 39 hp.
For example https://www.pakwheels.com/blog/imported-suzuki-alto-turbo-660cc-is-more-powerful-than-local-1000cc-cars-in-pakistan-owners-review/ (see video @ 5m30s)

There are 2 basic differences: low compression ratio (10:1 vs 11.5:1) and VVT. Despite that the local Alto is plenty quick. Source Wikipedia https://en.wikipedia.org/wiki/Suzuki_Alto#Pakistan_2