AmontevideenseJCM9937

What was searched

Routing

Whole phylum. No curated family covers this lineage, so every family of the genome's phylum was searched. Family labels are less reliable here.

Families searched

Basidiomycota:HD, Basidiomycota:PR, Basidiomycota:MAT, Basidiomycota:Aalpha, Basidiomycota:Abeta, Basidiomycota:Balpha, Basidiomycota:Bbeta, Basidiomycota:aLocus, Basidiomycota:bLocus

Genetic code

1

Taxonomy

local NCBI taxonomy snapshot 2026-10-01

Families searched but not called

Pheromone-receptor arrays

Receptor arrays occur for both mating and non-mating STE3-like receptors (the study found arrays holding paralogs beside the mating receptors in Coprinopsis cinerea and Schizophyllum commune), so array membership does not establish that a locus is a mating receptor. receptor_array_support is a flag on the evidence behind an array; it never changes a call, its confidence or its verification label. receptor_cassette_* fields describe pheromone-precursor cassette structure (2 or more strict-CAAX ORFs within 5 kb of a receptor locus; class C when that many of those ORFs also carry tblastn precursor homology). They are descriptive only: the CAAX scan is also what admits a PR call, so cassettes are circular as confirmation; own-species curated precursors are a self-hit for class C; tandem receptors may be merged into one locus. They never change a call, tier, label, confidence or count.

Withheld candidate loci 322

Places with some MAT-gene evidence that did not pass a quality gate. Most genomes have several. They are listed so a known locus can be checked against them, not because they are likely calls.

Reasons: fewer than 2 genes could be modelled (322).

Provenance

Genome file

AmontevideenseJCM9937.genome.fasta

Assembly

61 contigs · 24.9 Mb · N50 2.0 Mb

Genome SHA-256

e61508cf3139fb3ebfe8510e581da91d64374197325a0f0e8817779cf81ac249

MATPredict

0.8.1 (v0.8.1, 3a62e6302b)

Database

86f18d232e4fe95d · 185 records

Taxonomy

local NCBI taxonomy snapshot 2026-10-01

Parameters

phylum=Basidiomycota, phylum_guess={'requested': 'auto', 'status': 'ok', 'usable': True, 'reason': None, 'phylum': 'Basidiomycota', 'phylum_taxid': 5204, 'deepest_rank': 'genus', 'routing_taxid': 1759442, 'routing_taxid_rank': 'family', 'flags': ['identical_to_reference'], 'gmg_version': 'gmg 0.3.2 (66055154a)', 'index': 'bfd-reps-2026.10.5-s20000.gmgi', 'index_sha256': '0f319567f1cab17643e1daf7ffdc0e3b312bd43913e351568108d67a4a19702c', 'index_spec': 'bfd-reps-2026.10.5-s20000.gmgi', 'note': 'GmG called phylum Basidiomycota', 'action': 'routed', 'weak_call_accepted': False, 'genetic_code': 1, 'genetic_code_from': 'family taxid 1759442', 'routed_by': 'family taxid 1759442 (phylum_fallback)'}, genetic_code=1, min_hits=2, require_core_role=True, max_polished_clusters_per_family=6, polish_strong_identity=50.0, polish_core_pair=True, partial_core_policy=off, homothallic_policy=off, confidence_cap_policy=off, cross_family_policy=off, fallback_after_withheld_policy=off, strong_single_gene_policy=off, scoped_roster_policy=off, supported_min_bitscore=33.0

Run started

2026-11-07T02:13:40Z

Run time

142 s

Files

detection_report.yaml, detected_loci.gff3

Cite MATPredict as given in CITATION.cff at github.com/stajichlab/MATPredict. The reference records named in the gene tables are curated database entries; each record's metadata cites its source publication.