fix: upper case root sequence for ancestral reconstruction #1758

Job	Run time
pathogen-repo-ci (avian-flu)	1m 11s
pathogen-repo-ci (ebola)	1m 0s
test (python=3.8 biopython=1.76)	10m 19s
pathogen-repo-ci (lassa)	1m 6s
test (python=3.8 biopython=1.79)	11m 16s
pathogen-repo-ci (mumps)	1m 10s
test (python=3.8 biopython=1.80)	8m 0s
pathogen-repo-ci (ncov)	1m 21s
test (python=3.8 biopython=latest)	10m 59s
pathogen-repo-ci (rsv)	2m 12s
test (python=3.9 biopython=1.79)	9m 49s
pathogen-repo-ci (seasonal-flu)	1m 1s
test (python=3.9 biopython=1.80)	10m 9s
pathogen-repo-ci (tb)	2m 6s
build-docs / build-pip	1m 32s
test (python=3.9 biopython=latest)	8m 57s
pathogen-repo-ci (zika)	55s
test (python=3.10 biopython=1.80)	11m 16s
test (python=3.10 biopython=latest)	8m 15s
build-docs / build-conda	0s
test (python=3.11 biopython=1.80)	8m 29s
test (python=3.11 biopython=latest)	9m 35s
codecov	21s
	2h 0m 59s

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