perf: optimize read layout inference and defaults

[balajtimate]

Description

Based on the results from the testing data, the default parameter was optimized:

• Shortened adapter fragments to a length of 12, removed duplicates
• Updated the default parameter for --read-layout-min-match-percentage to 0.1
• Updated README.md

Fixes #107

Type of change

• [X] Bug fix (non-breaking change which fixes an issue)
• [X] Documentation update

Checklist

Please carefully read these items and tick them off if the statements are true or do not apply.

• [X] I have performed a self-review of my own code
• [X] My code follows the existing coding style, lints and generates no new warnings
• [X] I have added type annotations to all function/method signatures, and I have added type annotations for any local variables that are non-trivial, potentially ambiguous or might otherwise benefit from explicit typing.
• [X] I have commented my code in hard-to-understand areas
• [X] I have added ["Google-style docstrings"] to all new modules, classes, methods/functions or updated previously existing ones
• [X] I have added tests that prove my fix is effective or that my feature works
• [X] New and existing unit tests pass locally with my changes and I have not reduced the code coverage relative to the previous state
• [X] I have updated any sections of the app's documentation that are affected by the proposed changes

If for some reason you are unable to tick off all boxes, please leave a comment explaining the issue you are facing so that we can work on it together.

[codecov[bot]]

Codecov Report

Patch coverage: 100.00% and no project coverage change.

Comparison is base (fa369b2) 99.78% compared to head (31be102) 99.78%.

Additional details and impacted files

```diff @@ Coverage Diff @@ ## dev #124 +/- ## ======================================= Coverage 99.78% 99.78% ======================================= Files 12 12 Lines 948 948 ======================================= Hits 946 946 Misses 2 2 ``` | [Impacted Files](https://codecov.io/gh/zavolanlab/htsinfer/pull/124?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab) | Coverage Δ | | |---|---|---| | [htsinfer/cli.py](https://codecov.io/gh/zavolanlab/htsinfer/pull/124?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab#diff-aHRzaW5mZXIvY2xpLnB5) | `100.00% <ø> (ø)` | | | [htsinfer/get\_read\_layout.py](https://codecov.io/gh/zavolanlab/htsinfer/pull/124?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab#diff-aHRzaW5mZXIvZ2V0X3JlYWRfbGF5b3V0LnB5) | `100.00% <ø> (ø)` | | | [htsinfer/models.py](https://codecov.io/gh/zavolanlab/htsinfer/pull/124?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab#diff-aHRzaW5mZXIvbW9kZWxzLnB5) | `100.00% <100.00%> (ø)` | |

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