[MUMmer-help] error when running show-snps

[Sean M. <Sea...@uc...>]

Hello,

I ran an alignment of a file of contigs (FASTA from Velvet) against a  reference E. coli genome (called MG1655.fa).

I ran show-snps on the .delta file and got an error stating that MG1655 was not in the reference.

How do I correct this?

Sean