MATPredict · mating-type report

PpachyrhiziMT2006

MAT locus above the FungiDB annotation (gene by gene)

organism not recorded

Run by MATPredict 0.8.1 (v0.8.1, 3a62e6302b) · database 86f18d232e4f · local NCBI taxonomy snapshot 2026-10-01 · rendered 2026-11-07 02:38 UTC by MATPredict 0.8.1

Result

Mating-type loci

undeterminedhigh confidenceundeterminedhigh confidence

Called loci 2

undetermined rustHD family · Basidiomycota

high confidence
Gene order of the undetermined locus on MU605945undetermined locus: genes from left to right on MU605945, 39,671 to 43,124: bW (core MAT gene, minus strand); bE (core MAT gene, plus strand).40 kb41 kb42 kb43 kb← 39.4 kb more to contig endcalled locusbW: core MAT gene, 39,671–41,152 (-), identity 35.7%, search hit onlybWbE: core MAT gene, 42,143–43,124 (+), identity 36.3%, search hit onlybE
Gene order on MU605945. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on MU605945, 39,371 to 43,424BY996DRAFT_672777 39,394-41,367 (-): Homeobox KN domain | domain-containing proteinBY996DRAFT_672777BY996DRAFT_6420305 42,143-43,124 (+): hypothetical proteinBY996DRAFT_6420305
FungiDB release 71 annotation of the same window: gene models from the GFF (filled = CDS, pale = UTR exon, line = intron, arrow = strand). Green genes overlap a MATPredict gene on the same strand; grey genes do not. Click a gene to open it on fungidb.org.
  • core MAT gene
  • search hit only
  • Idiomorph undetermined: the evidence for two idiomorphs is tied or too close to call.
Location
MU605945:39,671–43,124 · 3.5 kb
Own genes
MU605945:39,671–43,124 · 3.5 kb
Locus
A MAT gene with no flanking gene beside it; not a full locus.
Genes modelled
2 of 2 gene hits
Nearest contig end
39.7 kb
Region (samtools)
MU605945:39671-43124

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
bWcore MAThit onlyDIAMOND, proteome35.7cov 27.1%4.3e-38136 bits39,671–41,152 -–418459_crl-75-36-700-3_rustHD_b1BY996DRAFT_672777
bEcore MAThit onlyDIAMOND, proteome36.3cov 55.1%9.8e-2284 bits42,143–43,124 +–630390_1-1-bbbd-race-1_rustHD_b2BY996DRAFT_6420305

undetermined rustHD family · Basidiomycota

high confidence
Gene order of the undetermined locus on MU608201undetermined locus: genes from left to right on MU608201, 13,889 to 16,716: bW (core MAT gene, minus strand); bE (core MAT gene, plus strand).14.0 kb14.5 kb15.0 kb15.5 kb16.0 kb16.5 kb17.0 kb← 13.6 kb more to contig endcalled locusbW: core MAT gene, 13,889–15,090 (-), identity 33.6%, search hit onlybWbE: core MAT gene, 15,840–16,716 (+), identity 72.2%, search hit onlybE
Gene order on MU608201. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on MU608201, 13,589 to 17,016BY996DRAFT_2490737 13,644-15,416 (-): Homeobox KN domain | domain-containing proteinBY996DRAFT_2490737BY996DRAFT_6425382 15,840-16,716 (+): Homeodomain | domain-containing proteinBY996DRAFT_6425382
FungiDB release 71 annotation of the same window: gene models from the GFF (filled = CDS, pale = UTR exon, line = intron, arrow = strand). Green genes overlap a MATPredict gene on the same strand; grey genes do not. Click a gene to open it on fungidb.org.
  • core MAT gene
  • search hit only
  • Idiomorph undetermined: the evidence for two idiomorphs is tied or too close to call.
Location
MU608201:13,889–16,716 · 2.8 kb
Own genes
MU608201:13,889–16,716 · 2.8 kb
Locus
A MAT gene with no flanking gene beside it; not a full locus.
Genes modelled
2 of 2 gene hits
Nearest contig end
13.9 kb
Region (samtools)
MU608201:13889-16716

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
bWcore MAThit onlyDIAMOND, proteome33.6cov 54.3%7.6e-36124 bits13,889–15,090 -–747676_98ag31_rustHD_b1BY996DRAFT_2490737
bEcore MAThit onlyDIAMOND, proteome72.2cov 9.2%2.8e-1461 bits15,840–16,716 +–747676_98ag31_rustHD_b1BY996DRAFT_6425382

Provenance

Genome file
PpachyrhiziMT2006.genome.fasta
Assembly
7,464 contigs · 1,057.4 Mb · N50 222.5 kb
Genome SHA-256
10800c4627013ba3d2adff4b980a51bf60b521e7a47da26e5c39299f3aa29bc9
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': 'species', 'routing_taxid': 145793, 'routing_taxid_rank': 'family', 'flags': ['long_genome'], '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 145793', 'routed_by': 'family taxid 145793 (lineage)'}, 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
2026-11-07T02:37:54Z
Run time
38 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.

How to read this report

Idiomorph
The form of the mating-type locus a strain carries (for example MAT1-1 or MAT1-2, Plus or Minus). Basidiomycota HD and PR alleles are named after the reference they match.
High confidence
Every expected core MAT gene was found and modelled, with a conserved flanking gene where the family has one, on one contig.
Medium confidence
The core genes were found, but a gene could not be modelled, no conserved flank was found, or the locus is split (one step down).
Low confidence
A single isolated gene hit, or no core MAT gene.
Model status
Gene model: the reference protein was aligned to the genome to build the gene (exonerate, miniprot). Models differ: the two tools disagree on the structure; the alternate model is shown. Hit only: a search hit with no model, weaker evidence.
Identity
Percent amino-acid identity between the gene (or hit) and the closest reference protein.
Reference record
The curated database record whose protein matched best. Each record's metadata cites the publication or deposit it comes from.

Limits