MATPredict · mating-type report

DfabryiCBS789

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 01:59 UTC by MATPredict 0.8.1

Result

Mating type

alphahigh confidence

Called loci 1

alpha MTL family · Ascomycota

high confidence
Gene order of the alpha locus on LMYN01000014alpha locus: genes from left to right on LMYN01000014, 86,090 to 89,485: MTLA2 (core MAT gene, plus strand); MTLA1 (core MAT gene, plus strand); MTLalpha1 (core MAT gene, plus strand).86 kb87 kb88 kb89 kb22.7 kb more to contig end →called locusMTLA2: core MAT gene, 86,090–86,910 (+), identity 88.4%, gene modelMTLA2MTLA1: core MAT gene, 87,209–87,818 (+), identity 79.07%, gene modelMTLA1MTLalpha1: core MAT gene, 88,847–89,485 (+), identity 83.0%, search hit onlyMTLalpha1
Gene order on LMYN01000014. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on LMYN01000014, 85,790 to 89,785AC631_01143 88,847-89,485 (+): Alpha box domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A0V1Q448]AC631_01143AC631_01144 89,770-90,690 (-): unspecified productAC631_01144
FungiDB release 68 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
  • gene model
  • search hit only
Location
LMYN01000014:86,090–89,485 · 3.4 kb
Cross-lineage class
MAT1-1
Own genes
LMYN01000014:86,090–89,485 · 3.4 kb
Locus
A MAT gene with no flanking gene beside it; not a full locus.
Genes modelled
3 of 3 gene hits
Nearest contig end
23.0 kb
Region (samtools)
LMYN01000014:86090-89485
Idiomorph scores
  • alpha 362.0
  • A 254.0

Margin over the next idiomorph: 108.0

Score: bitscore of the best core-gene hit for each idiomorph.

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MTLA2core MATgene modelexonerate88.4cov 99.6%1.8e-116254 bits86,090–86,910 +24959_cbs767_MTL_Anone
MTLA1core MATgene modelexonerate79.1cov 99.4%9.8e-66216 bits87,209–87,818 +34959_cbs767_MTL_Anone
MTLalpha1core MAThit onlyDIAMOND, proteome83.0cov 100.0%3.6e-132362 bits88,847–89,485 +–4959_cbs767_MTL_AAC631_01143

Withheld candidate loci 42

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 (38); too few of the family's genes found (4).

Show the 42 withheld loci

Withheld loci (42)

familylocationidiomorph genesmodelledreason
MTLLMYN01000014:8,625–8,714AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000043:51,734–51,862alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000023:37,451–37,567alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000077:3,034–3,141alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000005:56,399–56,509AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000100:1,541–1,777AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000009:95,539–95,823AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000045:32,236–32,379AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000008:157,646–157,783AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000034:9,483–9,575AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000098:38,031–38,159AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000503:57–215AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000060:19,438–19,581AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000165:20,331–20,426AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000010:130,477–130,617alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000112:21,774–22,112alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000107:4,602–4,709alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000166:2,560–2,730alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000013:100,388–100,549alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000258:533–748alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000209:11,606–11,725alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000007:2,099–2,242alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000007:58,684–58,854alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000011:112,928–113,020AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000072:44,207–44,401AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000171:18,153–18,257AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000075:38,240–38,359alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000047:11,037–11,330alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000030:58,555–58,755AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000052:19,237–19,338AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000114:6,672–6,869AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000154:16,952–17,284AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000063:45,644–45,859AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000080:10,342–10,440alphaMTLalpha10fewer than 2 genes could be modelled
MTLLMYN01000022:37,036–37,146AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000048:34,955–35,230AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000038:41,146–41,283AMTLA20fewer than 2 genes could be modelled
MTLLMYN01000276:4,542–4,745AMTLA10fewer than 2 genes could be modelled
MTLLMYN01000012:85,696–86,967undeterminedOBP11too few of the family's genes found
MTLLMYN01000020:36,892–42,597undeterminedPIK11too few of the family's genes found
MTLLMYN01000096:19,490–26,310undeterminedPAP1, OBP1, PIK13too few of the family's genes found
MTLLMYN01000115:2,410–5,619undeterminedPIK11too few of the family's genes found

Provenance

Genome file
DfabryiCBS789.genome.fasta
Assembly
536 contigs · 11.7 Mb · N50 59.3 kb
Genome SHA-256
d5f8a2d4c704fd6863d1248c969de43ab4300d7e9653606869e7112155030450
MATPredict
0.8.1 (v0.8.1, 3a62e6302b)
Database
86f18d232e4fe95d · 185 records
Taxonomy
local NCBI taxonomy snapshot 2026-10-01
Parameters
phylum=Ascomycota, phylum_guess={'requested': 'auto', 'status': 'ok', 'usable': True, 'reason': None, 'phylum': 'Ascomycota', 'phylum_taxid': 4890, 'deepest_rank': 'species', 'routing_taxid': 766764, 'routing_taxid_rank': 'family', 'flags': [], '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 Ascomycota', 'action': 'routed', 'weak_call_accepted': False, 'genetic_code': 12, 'genetic_code_from': 'family taxid 766764', 'routed_by': 'family taxid 766764 (lineage)'}, genetic_code=12, 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
2026-11-07T01:58:40Z
Run time
20 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