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The second is a global alignment algorithm, designed to align entire sequences.

These were then aligned using a global alignment algorithm [30].

Sequences were aligned using Web-based global alignment program ClustalW2 (http://www.ebi.ac.uk/Tools/clustalw2/).ac.uk/Tools/clustalw2/

Amino acid sequences were aligned in Geneious using global alignment with default parameters [ 57].

Global alignment is more difficult, because networks to be aligned generally differ in size.

A global alignment is then implemented.

Fig. 2 Example of a syntenic global alignment.

In order to deal with sequences that have intermittent similarities, Huang and Chao proposed in [20] a variant of the global alignment called generalized global alignment.

In contrast to ROCS, AR does not aim at finding the exact global alignment solution.

For the global alignment, correspondences between markers from different series need to be established.

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