** what it does **
Converts UCLUST format (.uc) output from Vsearch search into raw count table. The description of UCLUST format is based on the information that can be found on UCLUST documentation page.
| Type | Cluster | Size | %Id | Strand | Qlo | Tlo | Alignment | Query | Target |
| S | 0 | 292 | '*' | '*' | '*' | '*' | '*' | AH70_12410 | '*' |
| H | 0 | 292 | 99.7 | '+' | 0 | 0 | 292M | AH70_12410 | '*' |
| S | 0 | 292 | '*' | '*' | '*' | '*' | '*' | AH70_12410 | '*' |
| H | 0 | 292 | 98.2 | '+' | 0 | 0 | 292M | AH70_12410 | '*' |
| Column | Description |
| Type | Record type |
| Cluster | Cluster number |
| Size | Sequence length or cluster size |
| %Id | Identity to the seed(as a percentage), or * if this is a seed. |
| Strand | '+' plus strand, '-' minus strand, or '.' amino acids. |
| Qlo | 0-based coordinate of alignment start in the query sequence. |
| Tlo | 0-based coordinate of alignment start in target (seed) sequence. If minus strand, Tlo is relative to start of reverse-complement target. |
| Alignment | Compressed representation of alignment to the seed(see below), or '*' if a seed. |
| Query | FASTA label of query sequence |
| Target | FASTA label of target(seed / library / database) sequence. or '*' if a seed. |
| Column | Description |
| L | Library seed(generated only if a match if found to this seed). |
| S | New seed. |
| H | Hit, also known as an accept; i.e. a successful match. |
| D | Library cluster. |
| C | New cluster. |
| N | Not matched (a sequence that didn't match library with --libonly specified). |
| R | Reject (generated only if --output_rejects is specified) |
| Code | Name | Query sequence | Seed sequence |
| M | Match | Letter | Letter |
| D | Delete | Gap | Letter |
| I | Insert | Letter | Gap |