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Cleanup columns related to delayed deletion on instance level

What does this MR do and why?

Based on the issue, we're removing columns from ApplicationSetting model. Since we're following https://docs.gitlab.com/ee/development/database/avoiding_downtime_in_migrations.html documentation, we'll do it in 3 releases:

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Please evaluate this MR against the MR acceptance checklist. It helps you analyze changes to reduce risks in quality, performance, reliability, security, and maintainability.

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Related to #411206 (closed)

Edited by Bojan Marjanovic

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