setup.py: Update
Set up scripts folder for examples and useful scripts using the TandemRepeats package
Configuration: Load all configuration in a singleton class in Configuration
Bugfix: finders as list in Configuration
Add substituion matrix and hhrepid default matrix
Update to defaults.ini
hmm.py: Do not load substitution matrix (deprecated, as HMMER HMMs are used)
repeat_io.py: remove random sequence generation code
Slight modifications to test functions
repeat_list.py: Add write method
repeat_list_test.py: Test tsv serializer
repeat_detection_run_test.py: Add tests per TRD
setup.py: Extend
defaults.ini: slight restructure
detect_tandem_repeats_in_sequence.py: remove prints
Merge branch 'refactoring' into refactoring_w_data