The VULGAR format#
Vulgar is Verbose Useful Labelled Gapped Alignment Report, This format also starts with the same 9 fields as SUGAR output, and is followed by a series of
| Operator | Description |
|---|---|
| M | Match |
| C | Codon |
| G | Gap |
| N | Non-equivalenced region |
| 5 | 5' splice site |
| 3 | 3' splice site |
| I | Intron |
| S | Split codon |
| F | Frameshift |
The format seems to have been originally develloped for the Exonerate tool. The F seems to have been used for the definition of the GFF3 gap attribute that use the CIGAR string as reference.