Could not calculate ungapped karlin altschul parameters



Keywords: could not calculate ungapped karlin altschul parameters
Description: i am trying to run tblastn of version 2.2.26+ for mapping peptides on eukaryotic genome, i am running the command tblastn -query sequence.fa -out output.txt -subject ref_protein.fa -evalue 1e-5

i am trying to run tblastn of version 2.2.26+ for mapping peptides on eukaryotic genome, i am running the command

tblastn -query sequence.fa -out output.txt -subject ref_protein.fa -evalue 1e-5 -outfmt 7 -max_target_seqs 5 -best_hit_score_edge 0.05 -best_hit_overhang 0.25

Warning: lcl|Query_20167 contig20167: Warning: Could not calculate ungapped Karlin-Altschul parameters due to an invalid query sequence or its translation. Please verify the query sequence(s) and/or filtering options.

i used dustmasker also for filtering and masking and then run with masked genome, but still got the same error. i ahve also run by keeping filtering turn off with the following command

tblastn -query sequence.fa -out output.txt -F T -subject ref_protein.fa -evalue 1e-5 -outfmt 7 -max_target_seqs 5 -best_hit_score_edge 0.05 -best_hit_overhang 0.25






Photogallery Could not calculate ungapped karlin altschul parameters:


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