This repository was archived by the owner on Mar 11, 2025. It is now read-only.
This repository was archived by the owner on Mar 11, 2025. It is now read-only.
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When attempting to run progressiveMauve, it returns the following error:
Sequence loaded successfully.ERROR! gap character encountered at genome sequence position 1732758
Input sequences must be unaligned and ungapped!
The problematic file is contigsOutput_3.fa.
Have checked file searching for regex [ACGT]- and found no results (- is the gap character).
Sarah has suggested N's might be the issue, but these appear in all other un-problematic files checked also.
Google implies it may be an EOL/Unicode issue:
https://sourceforge.net/p/mauve/mailman/message/25982371/
Possible since this is one of the files which were generated with a generic name and no file extension, and were just renamed _X.fa.
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