{
  "annotation_id": "d58fbf17-515f-4aa2-9473-fc84f21ededc",
  "date_created": "2026-03-02T18:01:32.327000Z",
  "date_modified": "2026-03-02T18:01:32.327000Z",
  "file_hash": "a3a879401f75a4620dfd1f2ff2630423f0d3cddc93e3cbe681fefac91f825a5f",
  "private": false,
  "record": {
    "abstract": "We describe an new algorithm for visualizing an alignment of biological\nsequences according to a probabilistic model of evolution. The resulting data\narray is readily interpreted by the human eye and amenable to digital image\ntechniques. We present examples using mRNA sequences from mouse and rat: three\ncytochromes, Rattus norvegicus Cyp2a1, Cyp2a2, (Medline: 90212624) and Mus\nmusculus Cyp2a12 (Medline: 93249380); and two zinc finger proteins, Mus\nmusculus zfp111 and zfp235 (Medline: 22683274). The underlying evolutionary\nmodel is derived from one proposed by Thorne, Kishino, and Felsenstein and\nimproved by Hein and others. The demonstration implementation aligns two\nsequences using time and memory quadratic in the mean sequence length. The\nalgorithm is extensible, after Hein, to multiple sequences. We mention a basic\nmethod to reduce time and memory demands.",
    "arxiv_id": "q-bio/0409035",
    "authors": [
      "Lawren Smithline"
    ],
    "categories": [
      "q-bio.PE",
      "q-bio.GN"
    ],
    "title": "Probabilistic pairwise sequence alignment",
    "url": "https://arxiv.org/abs/q-bio/0409035"
  },
  "schema_id": "dorsal/arxiv",
  "source": {
    "execution_id": "9a3c8088-d859-4424-aa90-1fbdd39643ac",
    "id": "arXiv Dataset IDs",
    "type": "Model",
    "variant": "snapshot-2026-03-01",
    "version": "0.1.0"
  },
  "user_id": 1000002
}