No way you can do this with auto-increment ID because IDS are not to order rows, but to identify the rows and assert it's the only row with that ID. If you want to, use a new specific column for this purpose, this way the IDs still the same and you can sort using anything as indexes.
CREATE TABLE flights (
id INTEGER AUTO_INCREMENT,
index INTEGER NOT NULL,
origin TEXT NOT NULL,
destination TEXT NOT NULL,
duration INTEGER NOT NULL,
PRIMARY KEY (id),
UNIQUE KEY unique_index (index)
);
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