After running the Map Features step, the output consists of several files.
|PROJECT_map_features_console.txt||Copy of the text that appeared for this mapping in the Console side panel in the MegAlign Pro user interface.|
|PROJECT_map_features_report.tsv||See the text and table below this one for more information.|
|PROJECT_map_features_unmapped.tsv||Report of intervals in the target sequence to which no features were mapped. Generated only if requested in the Map Features Options screen under Unmapped Interval Report.|
The report.tsv file is a tab-separated report file that can be opened in Notepad++ (freeware) or any spreadsheet utility. This report file contains a row for each feature that you directed MegAlign Pro to map. The “Variation” column summarizes the most significant variation of the mapped feature against the source feature:
|Category||Label in report||Comments|
|Not mapped||Not_mapped||Can occur when the feature doesn’t map at all, or when the feature maps, but not well enough to pass the mapping thresholds.|
|[Non-protein sequences] First residue and/or last residue cannot be mapped with the current settings, or one/both align with a target gap.|
|Indel||Both insertions and deletions have occurred.|
|Insertion||An insertion has occurred.|
|Deletion||A deletion has occurred.|
|Substitutions||No_start||[CDS only] The initial codon in the mapped feature is not a start codon.|
|Nonsense||[CDS only] A substitution has resulted in an interior stop codon.|
|No_stop||[CDS only] The last codon in the mapped feature is not a stop codon.|
|Non-synonymous||[CDS only] Non-synonymous substitution occurred.|
|Synonymous||[CDS only] Synonymous substitution occurred.|
|Substitution||[Non-CDS] A substitution has occurred.|
Need more help with this?
Thanks for your feedback.