Sequencher appears to have problems when trying to import sequences and trace files which have long file names.This is a confusing problem, because Sequencher often does not give any error messages - just some things are wrong after importing. FASTA files (and also not in the chromat_dir or the same directory as the Phred-generated SCf files).
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Long file names(especially on Windows when processing ABI 3700 data).Some of the most common reasons for these problems are: The sequences have wrong file names (like seq.fasta #1) and no qualities.The qualities shown in Sequencher do not make sense.You cannot open the chromatograms after importing.Importing does not import all the sequences in the fasta file.Sequencher does not show the qualities, or shows qualities only for some of the imported sequences.Sequencher gives an obscure error message when trying to import.Sequencher is a leading tool for contig editing and assembly developed by Gene Codes Corporation.Ī number of things can go wrong when trying to import qualities from a Phred-generated. For general instructions on importing Phred qualities into Sequencher, click here.
This page describes some problems you may encounter when trying to import files with Phred qualities into Sequencher version 4. Sequencher Troubleshooting Sequencher Troubleshooting