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Unformatted text preview: uences (protein, DNA, RNA) •  The query sequences are assumed to have some sort of evolu1onary rela1onship by which they share some sort of lineage •  Many tools are available but this is a really complex computa1onal problem •  Used in phylogene1cs Short Read Alignment SW BowAe: memory ­efficient short read aligner. It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35 ­bp reads per hours Burrows ­Wheeler Aligner (BWA): an aliger that implements two algorithms: bwa ­short and BWA ­ SW. The former works for query sequences shorter than 200bp and the lader for longer sequences up to around 100kbp. Sequence Alignment/Map Format Sequence Reads Alignment SoMware SAM File Resequencing RNA Seq SNPs SAM format “A tab ­delimited text format consis1ng of a header sec1on, which is op1onal, and an alignment...
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