Hi, I'm looking at the placental mammals phyloP scores (using the raw data downloaded from FTP) and don't understand why sometimes the phyloP score is higher when more species are missing.
Example: chrX:24,916,507-24,916,644 This region is perfectly conserved in all placental mammals, except alpaca is completely missing. Perfectly conserved A/T scores 2.03, perfectly conserved C/G scores 2.57 in Placental Mammal PhyloP Conservation. chr1:10,795,193-10,795,335 This region is perfectly conserved in all placental mammals, except alpaca, squirrel, and hyrax are completely missing. Perfectly conserved A/T scores 2.19, perfectly conserved C/G scores 2.70 in Placental Mammal PhyloP Conservation. Why is the first region's perfectly conserved phyloP scores lower than the second, which has straightforwardly more missing placental mammals? Thanks, Huei-Hun Elizabeth Tseng _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
