MATPredict · mating-type report

KdejecticolaCBS10117

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 02:04 UTC by MATPredict 0.8.1

Result

Mating type

alphamedium confidence

Called loci 1

alpha MAT family · Basidiomycota

medium confidence
Gene order of the alpha locus on KI894028alpha locus: genes from left to right on KI894028, 1,906,348 to 1,966,863: RPL39 (core MAT gene, plus strand); STE3 (core MAT gene, minus strand); MFa (core MAT gene, minus strand); MFalpha (core MAT gene, minus strand); PAN6 (conserved flank, minus strand).1,910 kb1,920 kb1,930 kb1,940 kb1,950 kb1,960 kb623.7 kb more to contig end →called locusRPL39: core MAT gene, 1,906,348–1,906,796 (+), identity 95.92%, the two modelling tools disagreeRPL39STE3: core MAT gene, 1,924,352–1,925,662 (-), identity 54.8%, search hit onlySTE3MFa: core MAT gene, 1,934,455–1,934,571 (-), identity 50.0%, search hit onlyMFa (lost to MFalpha)MFalpha: core MAT gene, 1,934,455–1,934,571 (-), identity 56.41%, search hit onlyMFalphaPAN6: conserved flank, 1,965,068–1,966,863 (-), identity 61.7%, search hit onlyPAN6
Gene order on KI894028. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on KI894028, 1,903,321 to 1,969,890I303_02153 1,901,903-1,904,834 (-): hypothetical proteinI303_02153I303_02154 1,907,598-1,908,665 (-): hypothetical proteinI303_02154I303_02155 1,909,268-1,911,236 (-): hypothetical proteinI303_02155I303_02156 1,911,456-1,916,481 (-): STE/STE20/PAKA protein kinaseI303_02156I303_02157 1,916,810-1,921,289 (-): hypothetical proteinI303_02157I303_02158 1,921,741-1,924,258 (+): E1-like protein-activating enzyme Gsa7p/Apg7pI303_02158I303_02159 1,924,352-1,925,662 (-): hypothetical proteinI303_02159I303_02160 1,926,295-1,929,494 (+): hypothetical proteinI303_02160I303_02161 1,929,707-1,931,105 (-): pre-60S factor REI1I303_02161I303_02162 1,931,536-1,934,132 (+): hypothetical proteinI303_02162I303_02163 1,935,661-1,938,481 (-): hypothetical proteinI303_02163I303_02164 1,938,845-1,940,177 (-): hypothetical proteinI303_02164I303_02165 1,941,059-1,948,040 (+): chitin synthaseI303_02165I303_02166 1,949,112-1,950,788 (-): hypothetical proteinI303_02166I303_02167 1,952,927-1,955,778 (+): hypothetical proteinI303_02167I303_02168 1,956,674-1,957,296 (-): hypothetical proteinI303_02168I303_02169 1,958,814-1,961,471 (-): hypothetical proteinI303_02169I303_02170 1,961,816-1,964,699 (+): ATPaseI303_02170I303_02171 1,965,068-1,966,863 (-): pantoate-beta-alanine ligaseI303_02171I303_02172 1,967,269-1,969,781 (+): U4/U6 small nuclear ribonucleoprotein PRP4I303_02172
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
  • conserved flank
  • tools disagree
  • alternate model
  • search hit only
Location
KI894028:1,906,348–1,966,863 · 60.5 kb
Own genes
KI894028:1,906,348–1,966,863 · 60.5 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
3 of 5 gene hits
Nearest contig end
626.7 kb
Region (samtools)
KI894028:1906348-1966863
Idiomorph scores
  • alpha 43.5

Margin over the set-aside MFa hit: 6.4 identity points (the narrowest overlap resolution below).

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

Overlapping hits resolved

Where genes of two idiomorphs hit the same place, the stronger hit was kept.

keptidentity %set asideidentity %overlap %basis
MFalpha56.4MFa50.0100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
RPL39core MATmodels differexonerateminiprot: 1,906,348–1,906,799, 90.0%95.9cov 98.0%8.6e-1565 bits1,906,348–1,906,796 +340410_jec20_MAT_anone
STE3core MAThit onlyDIAMOND, proteome54.8cov 100.0%4.0e-138389 bits1,924,352–1,925,662 -–40410_jec21_MAT_alphaI303_02159
MFacore MATlost to MFalpha, not countedhit onlytblastn50.0cov 100.0%7.3e-0639 bits1,934,455–1,934,571 -–40410_jec20_MAT_anone
MFalphacore MAThit onlytblastn56.4cov 100.0%1.9e-0744 bits1,934,455–1,934,571 -–40410_jec21_MAT_alphanone
PAN6conserved flankhit onlyDIAMOND, proteome61.7cov 88.6%5.3e-158442 bits1,965,068–1,966,863 -–40410_jec20_MAT_aI303_02171
FAO1expected, not found–
NOG2not searchable: no reference protein in the database–
UAP1not searchable: no reference protein in the database–

Withheld candidate loci 3

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: too few of the family's genes found (3).

Show the 3 withheld loci

Withheld loci (3)

familylocationidiomorph genesmodelledreason
MATKI894030:422,701–424,642undeterminedSTE31too few of the family's genes found
MATKI894032:2,005,973–2,010,553alphaSXI1, SXI22too few of the family's genes found
MATKI894034:43,332–44,821undeterminedFAO11too few of the family's genes found

Provenance

Genome file
KdejecticolaCBS10117.genome.fasta
Assembly
13 contigs · 23.9 Mb · N50 2.1 Mb
Genome SHA-256
325694b7b4a298f517e79b007bc097dd709b9b8cb6f9fab3a4f8970c8763afb8
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': 1884633, '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 1884633', 'routed_by': 'family taxid 1884633 (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
2026-11-07T02:04:06Z
Run time
34 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