MATPredict · mating-type report

NglabratusBG2

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 02:41 UTC by MATPredict 0.8.1

Result

Mating type

MATalphamedium confidence

Called loci 1

MATalpha MATsc family · Ascomycota

medium confidence
Gene order of the MATalpha locus on CP048231MATalpha locus: genes from left to right on CP048231, 13,287 to 14,807: MATALPHA1 (core MAT gene, minus strand); MATA2 (core MAT gene, plus strand); MATALPHA2 (core MAT gene, plus strand).13.0 kb13.5 kb14.0 kb14.5 kb15.0 kb← 13.0 kb more to contig endcalled locusMATALPHA1: core MAT gene, 13,287–13,841 (-), identity 44.9%, search hit onlyMATALPHA1MATA2: core MAT gene, 14,175–14,807 (+), identity 52.6%, search hit onlyMATA2MATALPHA2: core MAT gene, 14,175–14,807 (+), identity 49.3%, search hit onlyMATALPHA2
Gene order on CP048231. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on CP048231, 12,987 to 15,107GWK60_B00055 13,090-13,320 (+): EMG1/NEP1 methyltransferase | domain-containing proteinGWK60_B00055GWK60_B00077 13,287-13,841 (-): Mating-type protein MAT alpha 1 HMG-box | domain-containing proteinGWK60_B00077GWK60_B00099 14,175-14,807 (+): MTLalpha2GWK60_B00099
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
Location
CP048231:13,287–14,807 · 1.5 kb
Cross-lineage class
MAT1-1
Own genes
CP048231:13,287–14,807 · 1.5 kb
Locus
Genes of both idiomorphs at one locus.
Genes modelled
2 of 3 gene hits
Nearest contig end
13.3 kb
Region (samtools)
CP048231:13287-14807
Idiomorph scores
  • MATalpha 87.4

Margin over the set-aside MATALPHA2 hit: 3.3 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
MATA252.6MATALPHA249.3100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MATALPHA1core MAThit onlyDIAMOND, proteome44.9cov 50.9%1.4e-2587 bits13,287–13,841 -–4932_s288c_MATsc_MATalphaGWK60_B00055 (opposite strand)
GWK60_B00077
MATA2core MAThit onlyDIAMOND, proteome52.6cov 75.6%3.6e-2996 bits14,175–14,807 +–4932_s288c_MATsc_HMRaGWK60_B00099
MATALPHA2core MAThit onlyDIAMOND, proteome49.3cov 30.5%7.4e-39123 bits14,175–14,807 +–28985_nrrl-y-1140_MATsc_HMLalphaGWK60_B00099
MATALPHA2expected, not found–
MATA1expected, not found–
cha1not searchable: no reference protein in the database–

Withheld candidate loci 36

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 (35); too few of the family's genes found (1).

Show the 36 withheld loci

Withheld loci (36)

familylocationidiomorph genesmodelledreason
MATscCP048231:115,459–116,685MATaMATALPHA1, MATA1, MATA21fewer than 2 genes could be modelled
MATscCP048239:39,403–39,576MATaMATA10fewer than 2 genes could be modelled
MATscCP048239:1,030,061–1,030,174undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048240:268,902–268,994MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048240:385,520–385,627undeterminedMATA20fewer than 2 genes could be modelled
MATscCP048240:428,455–428,670MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048240:693,364–694,953MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048240:1,042,588–1,042,794undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048240:1,253,809–1,253,985MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048241:40,452–40,715undeterminedMATA20fewer than 2 genes could be modelled
MATscCP048241:114,212–114,427MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048241:326,748–348,460MATalphaMATALPHA1, MATA20fewer than 2 genes could be modelled
MATscCP048241:681,859–681,963undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048241:799,538–799,732MATaMATA10fewer than 2 genes could be modelled
MATscCP048234:48,567–49,542MATaMATA1, MATA21fewer than 2 genes could be modelled
MATscCP048232:167,135–167,323undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048237:288,904–289,119undeterminedMATALPHA2, MATA20fewer than 2 genes could be modelled
MATscCP048237:319,967–320,176MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048237:573,584–573,775MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048236:592,118–592,219undeterminedMATA20fewer than 2 genes could be modelled
MATscCP048236:701,955–702,128MATaMATA10fewer than 2 genes could be modelled
MATscCP048236:768,885–769,058undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048238:35,319–35,423MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048238:130,896–131,168MATaMATA10fewer than 2 genes could be modelled
MATscCP048238:205,016–205,306undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048238:513,385–513,591MATaMATA10fewer than 2 genes could be modelled
MATscCP048242:578,902–584,590MATalphaMATALPHA1, MATALPHA20fewer than 2 genes could be modelled
MATscCP048242:665,849–665,971MATaMATA10fewer than 2 genes could be modelled
MATscCP048242:863,988–864,092MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048233:224,553–224,690undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048233:562,383–562,616undeterminedMATA20fewer than 2 genes could be modelled
MATscCP048233:589,636–589,779undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048235:147,097–147,348MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscCP048235:288,128–288,265undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscCP048235:575,651–575,812MATaMATA10fewer than 2 genes could be modelled
MATscCP048239:788,708–791,566undeterminedsla21too few of the family's genes found

Provenance

Genome file
NglabratusBG2.genome.fasta
Assembly
13 contigs · 12.7 Mb · N50 1.1 Mb
Genome SHA-256
319b86dc90b2f27025be6d46c4ceb5ea012d436471f63f77b03e7bbb9f6daa55
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': 4893, '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 4893', 'routed_by': 'family taxid 4893 (direct)'}, 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
2026-11-07T02:40:51Z
Run time
15 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