plasmid_identify

Active

declared in 1.1.0

Screen a query plasmid against a small curated set of common backbones (cloning vectors, expression vectors, BACs — see referencesChecked for the exact list) to identify which one(s) it resembles, separate an unmatched region (normal — your own insert) from a POSSIBLE CHIMERA (a region matching a different known backbone than its neighbor), and report per-match %identity/%coverage. NOT a search against Addgene's ~100k-plasmid catalog or PlasmidScope's 850k+ — a curated-set screen only.

Parameters schema

{
  "type": "object",
  "required": [
    "sequence"
  ],
  "properties": {
    "topN": {
      "type": "integer",
      "default": 5,
      "description": "How many top-ranked backbone candidates to report."
    },
    "circular": {
      "type": "boolean",
      "default": true,
      "description": "Treat the query as a circular molecule (most plasmids are)."
    },
    "sequence": {
      "type": "string",
      "description": "Nucleotide sequence (raw or FASTA; IUPAC accepted)."
    }
  },
  "additionalProperties": false
}

What this tool wraps· 0 endpoints

min confidence0.70 0.50

No endpoints wrapped at confidence ≥ 0.70.

Parent server

com.seqbench/workbench

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