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Into the heart of darkness: large-scale clustering of human non-coding DNA., , and . ISMB/ECCB (Supplement of Bioinformatics), page 40-48. (2004)A flexible ancestral genome reconstruction method based on gapped adjacencies., , and . BMC Bioinform., 13 (S-19): S4 (2012)A Probabilistic Model for Sequence Alignment with Context-Sensitive Indels., and . J. Comput. Biol., 18 (11): 1449-1464 (2011)Substring Parsimony.. Encyclopedia of Algorithms, (2016)Evolutionary Puzzles: An Introduction to Genome Rearrangement.. International Conference on Computational Science (2), volume 2074 of Lecture Notes in Computer Science, page 1003-1011. Springer, (2001)Finding Maximum Likelihood Indel Scenarios., , and . Comparative Genomics, volume 4205 of Lecture Notes in Computer Science, page 171-185. Springer, (2006)Reconstruction of Ancestral Genome Subject to Whole Genome Duplication, Speciation, Rearrangement and Loss., , , and . WABI, volume 6293 of Lecture Notes in Computer Science, page 78-89. Springer, (2010)The Median Problem for Breakpoints in Comparative Genomics., and . COCOON, volume 1276 of Lecture Notes in Computer Science, page 251-264. Springer, (1997)FootPrinter: a program designed for phylogenetic footprinting., and . Nucleic Acids Res., 31 (13): 3840-3842 (2003)Models and algorithms for genome rearrangement with positional constraints., , and . Algorithms Mol. Biol., (2016)