Cortexa research tool·structure·rfam

Rfam Get Alignment

Get RNA family seed alignment in multiple formats. Returns curated multiple sequence alignment used to build covariance model. Formats: stockholm (default, with structure annotation), pfam (stockholm single-line), fasta (gapped), fastau (ungapped). Optional gzip compression for large alignments. Use for: sequence analysis, structure prediction, phylogenetic studies, homology detection. Alignments show conserved positions and base pairing.

Livelast probed 2026-04-30 23:07Z· 86msCortexa

Status

The most recent probe succeeded. Safe to call from the agent today.

Last probed: 1d ago
Last success: 1d ago
Last latency: 86ms

Schema

JSON Schema the agent (or your API call) must match.

{
  "properties": {
    "family_id": {
      "description": "Required: Rfam accession or family name",
      "type": "string"
    },
    "format": {
      "default": "stockholm",
      "description": "Alignment format: stockholm (structured), pfam (single-line), fasta (gapped), fastau (ungapped)",
      "enum": [
        "stockholm",
        "pfam",
        "fasta",
        "fastau"
      ],
      "type": "string"
    },
    "gzip": {
      "default": false,
      "description": "Compress output with gzip",
      "type": "boolean"
    },
    "operation": {
      "description": "Operation type",
      "enum": [
        "get_alignment"
      ],
      "type": "string"
    }
  },
  "required": [
    "operation",
    "family_id"
  ],
  "type": "object"
}

Examples (1)

Default Rfam Get Alignment call

public-safeinput

{
  "family_id": "",
  "gzip": false,
  "operation": ""
}

Expected response keys: success

Anonymous-safe example. Rate-limited; no sign-in required.

Identifiers

Catalog ID: tu_Rfam_get_alignment
Tool name: Rfam_get_alignment
Added: 2026-04-30 22:47Z
Tags: tooluniverse

Rfam Get Alignment

Livelast probed 2026-04-30 23:07Z· 86msCortexa

Schema

JSON Schema the agent (or your API call) must match.

{ "properties": { "family_id": { "description": "Required: Rfam accession or family name", "type": "string" }, "format": { "default": "stockholm", "description": "Alignment format: stockholm (structured), pfam (single-line), fasta (gapped), fastau (ungapped)", "enum": [ "stockholm", "pfam", "fasta", "fastau" ], "type": "string" }, "gzip": { "default": false, "description": "Compress output with gzip", "type": "boolean" }, "operation": { "description": "Operation type", "enum": [ "get_alignment" ], "type": "string" } }, "required": [ "operation", "family_id" ], "type": "object" }