feat: add mid-point rooting to refine #1503

Job	Run time
test-pathogen-repo-ci (avian-flu)	1m 35s
test-pathogen-repo-ci (ebola)	1m 15s
test-pathogen-repo-ci (lassa)	1m 13s
test-pathogen-repo-ci (monkeypox)	1m 37s
test-pathogen-repo-ci (mumps)	1m 21s
test-pathogen-repo-ci (ncov)	1m 49s
test-pathogen-repo-ci (seasonal-flu)	1m 21s
test-pathogen-repo-ci (zika)	1m 2s
test (python=3.7 biopython=1.73)	11m 29s
test (python=3.7 biopython=1.76)	10m 38s
test (python=3.7 biopython=1.79)	12m 6s
test (python=3.7 biopython=latest)	8m 48s
test (python=3.8 biopython=1.76)	13m 7s
test (python=3.8 biopython=1.79)	10m 7s
test (python=3.8 biopython=1.80)	8m 56s
test (python=3.8 biopython=latest)	9m 45s
test (python=3.9 biopython=1.79)	10m 27s
test (python=3.9 biopython=1.80)	9m 29s
test (python=3.9 biopython=latest)	10m 1s
test (python=3.10 biopython=1.80)	9m 43s
test (python=3.10 biopython=latest)	10m 1s
test (python=3.11 biopython=1.80)	9m 59s
test (python=3.11 biopython=latest)	10m 19s
build-docs / build-conda	0s
build-docs / build-pip	1m 31s
codecov	18s
	2h 47m 57s

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