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Use PhyPA to identify tRNA pseudogenes in zebrafish (Danio rerio) which has 12292 tRNA genes according to GtRNAdb (http://gtrnadb.ucsc.edu/). Top: partial tree from 1478 tRNALys genes. Bottom partial tree from 1162 tRNAGly genes. tRNA genes with extraordinarily long branches are most likely pseudogenes. The tRNA sequence ID includes chromosome, amino acid, and anticodon.
