chore: refactor provenance level 3 check into analysis

[benmss]

This PR refactors the provenance level 3 check so that its logic takes place as part of the analysis, and the results of which are stored in the database along with the provenance itself. This check then only needs to read from the analysis context to report the results.

To better separate provenance related logic from the Repo / Commit Finder, provenance scripts are moved to a new sub module.

[behnazh-w]

@benmss Please add the new verify-provenance cmd line option to the documentation (docs/source/pages/cli_usage/index.rst) and make sure the tutorials and documentation pages that require provenance verification are also updated.

[behnazh-w]

For some reason the tests/integration/cases/ossf_scorecard/test.yaml and tests/integration/cases/micronaut-projects_micronaut-test/test.yaml tests, which verify the provenances, do not include --verify-provenance but still pass.