MATPredict · mating-type report

EcrescensUAMH3008

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 02:03 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-2medium confidence

Called loci 1

MAT1-2 MAT family · Ascomycota

medium confidence
Gene order of the MAT1-2 locus on LCZI01000780MAT1-2 locus: genes from left to right on LCZI01000780, 65,782 to 84,818: SLA2 (conserved flank, plus strand); CIMG_00407 (core MAT gene, minus strand); MAT1-2-4 (core MAT gene, minus strand); MAT1-1-3 (core MAT gene, plus strand); MAT1-2-1 (core MAT gene, plus strand); MAT1-1-4 (core MAT gene, minus strand); COX13 (conserved flank, minus strand); APN2 (conserved flank, plus strand).65 kb70 kb75 kb80 kb85 kb← 64.8 kb more to contig endcalled locusSLA2: conserved flank, 65,782–69,448 (+), identity 90.7%, search hit onlySLA2CIMG_00407: core MAT gene, 73,884–74,184 (-), identity 43.59%, gene modelCIMG_00407MAT1-2-4: core MAT gene, 73,954–74,196 (-), identity 37.079%, search hit onlyMAT1-2-4MAT1-1-3: core MAT gene, 75,253–76,392 (+), identity 38.5%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 75,253–76,392 (+), identity 52.9%, search hit onlyMAT1-2-1MAT1-1-4: core MAT gene, 77,714–78,420 (-), identity 45.1%, search hit onlyMAT1-1-4COX13: conserved flank, 81,440–82,169 (-), identity 81.8%, search hit onlyCOX13APN2: conserved flank, 82,720–84,818 (+), identity 79.5%, search hit onlyAPN2
Gene order on LCZI01000780. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on LCZI01000780, 64,831 to 85,769EMCG_01399 65,782-69,448 (+): Sla2 Src like adaptor 2 [Source:UniProtKB/TrEMBL;Acc:A0A0G2I2V8]EMCG_01399EMCG_01400 71,156-71,406 (+): Ferredoxin--nitrite reductase [Source:UniProtKB/TrEMBL;Acc:A0A0G2J9T1]EMCG_01400EMCG_01401 73,833-74,762 (-): unspecified productEMCG_01401EMCG_01402 75,253-76,392 (+): HMG box domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A0G2I2D5]EMCG_01402EMCG_01403 77,714-78,420 (-): unspecified productEMCG_01403EMCG_01404 80,115-80,591 (-): unspecified productEMCG_01404EMCG_01405 81,440-82,169 (-): cytochrome c oxidase subunit 6aEMCG_01405EMCG_01406 82,720-84,818 (+): AP endonuclease 2EMCG_01406
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
LCZI01000780:65,782–84,818 · 19.0 kb
Own genes
LCZI01000780:65,782–84,818 · 19.0 kb
Locus
Genes of both idiomorphs at one locus.
Genes modelled
6 of 8 gene hits
Nearest contig end
65.8 kb
Region (samtools)
LCZI01000780:65782-84818
Idiomorph scores
  • MAT1-2 303.0
  • MAT1-1 147.0

Margin over the next idiomorph: 156.0

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
MAT1-2-152.9MAT1-1-338.5100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
SLA2conserved flankhit onlyDIAMOND, proteome90.7cov 99.3%< 1e-1801,511 bits65,782–69,448 +–107463_unknown-1_MAT_MAT1-2EMCG_01399
CIMG_00407core MATgene modelexonerate43.6cov 30.8%1.3e-2880 bits73,884–74,184 -25501_rs_MAT_MAT1-2EMCG_01401
MAT1-2-4core MAThit onlytblastn37.1cov 36.0%7.8e-0956 bits73,954–74,196 -–746128_af293_MAT_MAT1-2EMCG_01401
MAT1-1-3core MATlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome38.5cov 43.3%3.6e-1257 bits75,253–76,392 +–230073_uamh-1363_MAT_MAT1-1EMCG_01402
MAT1-2-1core MAThit onlyDIAMOND, proteome52.9cov 19.3%1.6e-104303 bits75,253–76,392 +–1873960_unknown-2_MAT_MAT1-2EMCG_01402
MAT1-1-4core MAThit onlyDIAMOND, proteome45.1cov 72.0%1.2e-46147 bits77,714–78,420 -–199306_rmscc1040_MAT_MAT1-1EMCG_01403
COX13conserved flankhit onlyDIAMOND, proteome81.8cov 73.3%8.6e-51151 bits81,440–82,169 -–5501_rs_MAT_MAT1-2EMCG_01405
APN2conserved flankhit onlyDIAMOND, proteome79.5cov 36.7%7.8e-221622 bits82,720–84,818 +–2903220_liq80xsp_MAT_combinedEMCG_01406
MAT1-1-1expected, not found–

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
MATLCZI01000157:7,085–8,803MAT1-1MAT1-1-31too few of the family's genes found
MATLCZI01000157:100,681–103,019MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
EcrescensUAMH3008.genome.fasta
Assembly
1,734 contigs · 30.7 Mb · N50 95.0 kb
Genome SHA-256
48cd9ab3468fc95a8aff0212f0a7d102ce4c52e2a8c8be0e48bf55e6c59864cc
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': 'genus', 'routing_taxid': 299071, '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': 1, 'genetic_code_from': 'family taxid 299071', 'routed_by': 'family taxid 299071 (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, scoped_roster=off: BGL1,GAP1 not searched, supported_min_bitscore=33.0
Run started
2026-11-07T02:02:18Z
Run time
70 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