App.config file is different on Release mode

Question

I am working with a project that is using Entity framework library. When I build that project with Debug configuration, I am getting .exe.config file with this:

<entityFramework>
  <defaultConnectionFactory type="System.Data.Entity.Infrastructure.SqlConnectionFactory, EntityFramework" />
  <providers>
    <provider invariantName="System.Data.SqlClient" type="System.Data.Entity.SqlServer.SqlProviderServices, EntityFramework.SqlServer" />
  </providers>
</entityFramework>

but when I build the same project using Release configuration, .exe.config file content changes:

<entityFramework>
  <defaultConnectionFactory type="System.Data.Entity.Infrastructure.LocalDbConnectionFactory, EntityFramework">
    <parameters>
      <parameter value="v13.0" />
    </parameters>
  </defaultConnectionFactory>
  <providers>
    <provider invariantName="System.Data.SqlClient" type="System.Data.Entity.SqlServer.SqlProviderServices, EntityFramework.SqlServer" />
    <provider invariantName="System.Data.SQLite.EF6" type="System.Data.SQLite.EF6.SQLiteProviderServices, System.Data.SQLite.EF6" />
  </providers>
</entityFramework>
<system.data>
  <DbProviderFactories>
    <remove invariant="System.Data.SQLite.EF6" />
    <add name="SQLite Data Provider (Entity Framework 6)" invariant="System.Data.SQLite.EF6" description=".NET Framework Data Provider for SQLite (Entity Framework 6)" type="System.Data.SQLite.EF6.SQLiteProviderFactory, System.Data.SQLite.EF6" />
    <remove invariant="System.Data.SQLite" />
    <add name="SQLite Data Provider" invariant="System.Data.SQLite" description=".NET Framework Data Provider for SQLite" type="System.Data.SQLite.SQLiteFactory, System.Data.SQLite" />
  </DbProviderFactories>
</system.data>

In result, when try to initialize database in Release configuration, I am getting an error: System.InvalidOperationException: 'The Entity Framework provider type 'System.Data.SQLite.EF6.SQLiteProviderServices, System.Data.SQLite.EF6' registered in the application config file for the ADO.NET provider with invariant name 'System.Data.SQLite.EF6' could not be loaded. Make sure that the assembly-qualified name is used and that the assembly is available to the running application. See http://go.microsoft.com/fwlink/?LinkId=260882 for more information.'

Why does that happen? Why those files are different depending on which configuration I run? Is there any easy way to solve that?