MATPredict · mating-type report

TmesentericaDSM1558

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 01:58 UTC by MATPredict 0.8.1

Result

Mating type

ahigh confidence

Called loci 1

a MAT family · Basidiomycota

high confidence
Gene order of the a locus on JH711534a locus: genes from left to right on JH711534, 586,275 to 732,277: PAN6 (conserved flank, minus strand); MFa (core MAT gene, plus strand); STE3 (core MAT gene, plus strand); RPL39 (core MAT gene, minus strand).600 kb650 kb700 kb483.7 kb more to contig end →called locusPAN6: conserved flank, 586,275–588,426 (-), identity 59.5%, search hit onlyPAN6MFa: core MAT gene, 614,935–615,057 (+), identity 40.476%, search hit onlyMFaSTE3: core MAT gene, 622,978–623,980 (+), identity 47.67%, gene modelSTE3RPL39: core MAT gene, 731,748–732,277 (-), identity 84.0%, search hit onlyRPL39
Gene order on JH711534. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on JH711534, 578,984 to 739,581TREMEDRAFT_31622 579,400-580,173 (+): hypothetical proteinTREMEDRAFT_31622TREMEDRAFT_44501 581,450-585,274 (-): hypothetical proteinTREMEDRAFT_44501TREMEDRAFT_32065 585,516-586,136 (+): hypothetical proteinTREMEDRAFT_32065TREMEDRAFT_32058 586,275-588,426 (-): hypothetical proteinTREMEDRAFT_32058TREMEDRAFT_74134 589,654-593,042 (-): hypothetical proteinTREMEDRAFT_74134TREMEDRAFT_71878 593,635-597,017 (+): hypothetical proteinTREMEDRAFT_71878TREMEDRAFT_74136 597,214-604,837 (-): hypothetical proteinTREMEDRAFT_74136TREMEDRAFT_63150 605,509-606,668 (+): hypothetical proteinTREMEDRAFT_63150TREMEDRAFT_63151 607,161-610,287 (+): hypothetical proteinTREMEDRAFT_63151TREMEDRAFT_39596 612,093-614,694 (+): hypothetical proteinTREMEDRAFT_39596TREMEDRAFT_39597 614,869-617,710 (-): hypothetical proteinTREMEDRAFT_39597TREMEDRAFT_74139 617,855-619,947 (+): hypothetical proteinTREMEDRAFT_74139TREMEDRAFT_31906 620,031-620,438 (-): hypothetical proteinTREMEDRAFT_31906TREMEDRAFT_31921 621,237-621,812 (-): hypothetical proteinTREMEDRAFT_31921TREMEDRAFT_71885 623,861-627,444 (-): hypothetical proteinTREMEDRAFT_71885TREMEDRAFT_57194 627,625-628,692 (-): hypothetical proteinTREMEDRAFT_57194TREMEDRAFT_57195 629,504-630,551 (-): hypothetical proteinTREMEDRAFT_57195TREMEDRAFT_69149 630,904-634,021 (-): hypothetical proteinTREMEDRAFT_69149TREMEDRAFT_71888 634,411-638,548 (+): hypothetical proteinTREMEDRAFT_71888TREMEDRAFT_31780 640,465-644,704 (+): hypothetical proteinTREMEDRAFT_31780TREMEDRAFT_71889 644,844-648,420 (-): hypothetical proteinTREMEDRAFT_71889TREMEDRAFT_31854 648,677-652,231 (-): hypothetical proteinTREMEDRAFT_31854TREMEDRAFT_11927 654,601-658,114 (+): hypothetical proteinTREMEDRAFT_11927TREMEDRAFT_31883 658,750-661,706 (+): hypothetical proteinTREMEDRAFT_31883TREMEDRAFT_74147 662,159-666,048 (-): hypothetical proteinTREMEDRAFT_74147TREMEDRAFT_69156 666,606-672,066 (-): hypothetical proteinTREMEDRAFT_69156TREMEDRAFT_74148 675,814-679,758 (+): hypothetical proteinTREMEDRAFT_74148TREMEDRAFT_32039 680,132-681,540 (-): hypothetical proteinTREMEDRAFT_32039TREMEDRAFT_71892 686,031-688,283 (-): hypothetical proteinTREMEDRAFT_71892TREMEDRAFT_23695 688,727-689,905 (-): hypothetical proteinTREMEDRAFT_23695TREMEDRAFT_44531 690,388-692,559 (+): hypothetical proteinTREMEDRAFT_44531TREMEDRAFT_74150 693,367-696,470 (-): hypothetical proteinTREMEDRAFT_74150TREMEDRAFT_63174 697,018-703,031 (+): hypothetical proteinTREMEDRAFT_63174TREMEDRAFT_12167 703,759-707,426 (-): hypothetical proteinTREMEDRAFT_12167TREMEDRAFT_69163 707,718-710,104 (-): hypothetical proteinTREMEDRAFT_69163TREMEDRAFT_63177 710,359-711,708 (-): hypothetical proteinTREMEDRAFT_63177TREMEDRAFT_63178 711,918-713,246 (-): hypothetical proteinTREMEDRAFT_63178TREMEDRAFT_44537 713,374-715,099 (+): hypothetical proteinTREMEDRAFT_44537TREMEDRAFT_31826 715,266-716,509 (-): hypothetical proteinTREMEDRAFT_31826TREMEDRAFT_32011 716,843-718,818 (+): hypothetical proteinTREMEDRAFT_32011TREMEDRAFT_74152 719,390-721,434 (-): hypothetical proteinTREMEDRAFT_74152TREMEDRAFT_57202 721,637-722,640 (+): hypothetical proteinTREMEDRAFT_57202TREMEDRAFT_39631 722,966-727,099 (+): hypothetical proteinTREMEDRAFT_39631TREMEDRAFT_63184 727,912-731,412 (+): hypothetical proteinTREMEDRAFT_63184TREMEDRAFT_31788 731,748-732,277 (-): 60S ribosomal protein L39TREMEDRAFT_31788TREMEDRAFT_71896 732,807-735,253 (+): hypothetical proteinTREMEDRAFT_71896TREMEDRAFT_63186 735,602-736,294 (+): hypothetical proteinTREMEDRAFT_63186
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
  • gene model
  • search hit only
Location
JH711534:586,275–732,277 · 146.0 kb
Own genes
JH711534:586,275–732,277 · 146.0 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
3 of 4 gene hits
Nearest contig end
491.0 kb
Region (samtools)
JH711534:586275-732277
Idiomorph scores
  • a 23.1

No other idiomorph scored.

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

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
PAN6conserved flankhit onlyDIAMOND, proteome59.5cov 89.1%2.5e-144406 bits586,275–588,426 -–40410_jec20_MAT_aTREMEDRAFT_32058
MFacore MAThit onlytblastn40.5cov 100.0%5.5e+0023 bits614,935–615,057 +–40410_jec20_MAT_aTREMEDRAFT_39597 (opposite strand)
STE3core MATgene modelexonerate47.7cov 79.7%2.0e-46170 bits622,978–623,980 +340410_jec21_MAT_alphaTREMEDRAFT_71885 (opposite strand)
RPL39core MAThit onlyDIAMOND, proteome84.0cov 98.0%9.2e-3089 bits731,748–732,277 -–40410_jec20_MAT_aTREMEDRAFT_31788
FAO1expected, not found–
NOG2not searchable: no reference protein in the database–
UAP1not searchable: no reference protein in the database–

Withheld candidate loci 2

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 (2).

Show the 2 withheld loci

Withheld loci (2)

familylocationidiomorph genesmodelledreason
MATJH711531:1,149,597–1,151,557undeterminedSTE31too few of the family's genes found
MATJH711540:239,848–241,608alphaSXI1, SXI21too few of the family's genes found

Provenance

Genome file
TmesentericaDSM1558.genome.fasta
Assembly
45 contigs · 28.6 Mb · N50 1.6 Mb
Genome SHA-256
83b337aff53b5cbed6ab91ee9bcb1ec4321b4ccbaa0e8874aca2fae4b3b9f64f
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': 5215, '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 Basidiomycota', 'action': 'routed', 'weak_call_accepted': False, 'genetic_code': 1, 'genetic_code_from': 'family taxid 5215', 'routed_by': 'family taxid 5215 (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
2026-11-07T01:57:52Z
Run time
31 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