Improve regionfilter performance

Description

Closes issues: Related issues:

Improves the region filter performance by 3x by narrowing region comparison to within the transcript(s) each allele is located in, rather than comparing all regions in whole chromosome.

Manually tested on 100 000 variants, comparing with and without these changes.

Notes to reviewer

Type of change

Application (affects UI or general functionality):

• New feature
• Bug fix
• Improvement

Ops / admin / CI related only (not impacting users):

• New feature
• Bug fix
• Improvement

Tests

General

• Tests have been added that prove my fix is effective or that my feature works
• Related tests have been modified/removed

Hypothesis testing:

• Soak testing has been done
• Distribution between positive / negative cases has been checked

Database

• Includes changes to database schema
• Includes necessary database migrations

Configuration

• Includes changes to configuration
• Includes configuration migration instructions in documentation

Merge checklist

• Self-review of code performed
• Feature review against specification (if applicable)
• Need for documentation has been evaluated and, if necessary, updated
• Code and implementation is reviewed by other core developer (all changes, inc. changes based on initial review)