Tool to detect small inversion in plastome
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2.2 years ago
wes ▴ 90

The complete plastome of tropical fruit Garcinia mangostana (Clusiaceae) reported that there is a 363 bp inversion between trnV-UAC and atpE gene.

May I know is there any tool can be used to detect small inversion within the plastome sequence as reported above?

inversion • 679 views
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2.2 years ago
cmdcolin ★ 4.0k

You can compare two sequences and look at it in a dotplot or synteny style view to visually see the result. To automatically detect inversions, may need a structural variant caller

See https://mummer.sourceforge.net/manual/AlignmentTypes.pdf for dotplot interpretation from mummer

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thanks for the suggestion. Will give it a try

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