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TY - CHAP AU - Katoh, Kazutaka AU - Asimenos, George AU - Toh, Hiroyuki ED - Posada, David PY - 2009 DA - 2009// TI - Multiple Alignment of DNA Sequences with MAFFT BT - Bioinformatics for DNA Sequence Analysis SP - 39 EP - 64 PB - Humana Press CY - Totowa, NJ AB - Multiple alignment of DNA sequences is an important step in various molecular biological analyses. As a large amount of sequence data is becoming available through genome and other large-scale sequencing projects, scalability, as well as accuracy, is currently required for a multiple sequence alignment (MSA) program. In this chapter, we outline the algorithms of an MSA program MAFFT and provide practical advice, focusing on several typical situations a biologist sometimes faces. For genome alignment, which is beyond the scope of MAFFT, we introduce two tools: TBA and MAUVE. SN - 978-1-59745-251-9 UR - https://doi.org/10.1007/978-1-59745-251-9\_3 DO - 10.1007/978-1-59745-251-9_3 ID - Katoh2009 ER -