• What is the longest match between the human and chimpanzee genomes?

  • May 17 2024
  • Length: 29 mins
  • Podcast
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What is the longest match between the human and chimpanzee genomes?

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  • Human-chimpanzee similarity is a hotly-debated topic in the evolution-creation wars. Are we 98, 95, 90, or 85% similar? One way to get at the question is to ask what is the longest stretch of DNA that is shared between the two species. This is a very difficult question to answer! But, unperturbed, Dr Rob set out to answer it. Will our fearless hero be able to pull it off? Spoiler alert: not quite, but the path of discovery is still very interesting. LastZ github.com/lastz/lastz LastZ chaining github.com/hillerlab/make_lastz_chains Mummer4 mummer4.github.io/ Blast blast.ncbi.nlm.nih.gov/Blast.cgi Telomere-to-Telomere Consortium primate projects github.com/marbl/Primates Python python.org/ Standard Bases: A: Adenine C: Cytosine G: Guanine T: Thymine (in DNA) U: Uracil (in RNA) Ambiguous Bases (IUPAC Codes): These codes are used when there is ambiguity in the nucleotide present at a particular position: R: A or G (puRine) Y: C or T (pYrimidine) S: G or C W: A or T (Weak) K: G or T (Keto) M: A or C (aMino) B: C, G, or T (not A) (B comes after A) D: A, G, or T (not C) (D comes after C) H: A, C, or T (not G) (H comes after G) V: A, C, or G (not T) (V comes after U; U is replaced with T in DNA) N: Any base (A, C, G, T) (N for any nucleotide) Silver Comet Trail silvercometga.com/
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