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B displays an example, where different rearrangements via basic SVs lead to equal outcomes. Here, a pair of inversions is equal to a duplication followed by two deletions and an inversion. As for A , the corresponding graph, folded adjacency matrix, and output of real-world SV callers are shown for both examples. Additional file 3 gives an analogous example, where a duplication followed by two inversions leads to the same outcome as two duplications followed by one inversion

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