Eddy Lab: tRNAscan-SE

tRNAscan-SE 1.21

User Manual for command-line UNIX version of program

If you would like to run tRNAscan-SE locally, you can get the UNIX source code (compressed tar file).

Analyzing tRNAs in a published genome? See our own tRNAscan-SE analyses of completed genomes in the Genomic tRNA Database.

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Extended Options:
Disable pseudo gene checking Show origin of first-pass hits
Display results in ACeDB format Show codons instead of tRNA anticodons
Show false positives from tRNAscan/EufindtRNA
Show primary and secondary structure components to Cove scores
Genetic Code for tRNA Isotype Prediction:

Default cut-off values should only be changed for execptional conditions
Cove score cutoff:
EufindtRNA search parameters:
Intermediate score cutoff:

tRNA cartoon by
Tod Klingler