MATPredict · mating-type report

Ssclerotiorum1980UF-70

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 01:50 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-2high confidence

Called loci 1

MAT1-2 MAT family · Ascomycota

high confidence
Gene order of the MAT1-2 locus on CP017815MAT1-2 locus: genes from left to right on CP017815, 2,954,649 to 2,971,253: SLA2 (conserved flank, plus strand); MAT1-1-1 (core MAT gene, plus strand); MAT1-2-10 (core MAT gene, minus strand); MAT1-2-1 (core MAT gene, plus strand); MAT1-1-3 (core MAT gene, plus strand); MAT1-1-5 (core MAT gene, minus strand); APN2 (conserved flank, minus strand); COX13 (conserved flank, plus strand).2,955 kb2,960 kb2,965 kb2,970 kb711.4 kb more to contig end →called locusSLA2: conserved flank, 2,954,649–2,958,111 (+), identity 98.6%, search hit onlySLA2MAT1-1-1: core MAT gene, 2,958,879–2,959,632 (+), identity 99.1%, search hit onlyMAT1-1-1MAT1-2-10: core MAT gene, 2,960,139–2,961,082 (-), identity 98.9%, search hit onlyMAT1-2-10MAT1-2-1: core MAT gene, 2,961,572–2,962,860 (+), identity 99.7%, search hit onlyMAT1-2-1MAT1-1-3: core MAT gene, 2,962,177–2,962,446 (+), identity 33.333%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-1-5: core MAT gene, 2,963,823–2,965,125 (-), identity 100.0%, search hit onlyMAT1-1-5APN2: conserved flank, 2,968,030–2,970,256 (-), identity 94.1%, search hit onlyAPN2COX13: conserved flank, 2,970,644–2,971,253 (+), identity 64.4%, search hit onlyCOX13
Gene order on CP017815. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on CP017815, 2,953,818 to 2,972,083sscle_02g020230 2,950,909-2,953,971 (+): unspecified productsscle_02g020230sscle_02g020240 2,954,649-2,958,111 (+): unspecified productsscle_02g020240sscle_02g020250 2,958,879-2,959,632 (+): unspecified productsscle_02g020250sscle_02g020260 2,960,139-2,961,082 (-): unspecified productsscle_02g020260sscle_02g020270 2,961,572-2,962,860 (+): unspecified productsscle_02g020270sscle_02g020280 2,963,823-2,965,125 (-): unspecified productsscle_02g020280sscle_02g020290 2,968,030-2,970,256 (-): unspecified productsscle_02g020290sscle_02g020300 2,970,644-2,971,253 (+): unspecified productsscle_02g020300sscle_02g020310 2,971,603-2,974,029 (-): unspecified productsscle_02g020310
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
  • search hit only
Location
CP017815:2,954,649–2,971,253 · 16.6 kb
Own genes
CP017815:2,954,649–2,971,253 · 16.6 kb
Locus
Genes of both idiomorphs at one locus.
Genes modelled
7 of 8 gene hits
Nearest contig end
712.3 kb
Region (samtools)
CP017815:2954649-2971253
Idiomorph scores
  • MAT1-2 782.0
  • MAT1-1 769.0

Margin over the next idiomorph: 13.0

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
MAT1-2-199.7MAT1-1-333.3100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
SLA2conserved flankhit onlyDIAMOND, proteome98.6cov 100.0%< 1e-1801,367 bits2,954,649–2,958,111 +–28548_06cwm-g22_MAT_combinedsscle_02g020240
MAT1-1-1core MAThit onlyDIAMOND, proteome99.1cov 65.4%9.7e-165451 bits2,958,879–2,959,632 +–5180_44ba1_MAT_combinedsscle_02g020250
MAT1-2-10core MAThit onlyDIAMOND, proteome98.9cov 93.6%2.3e-188510 bits2,960,139–2,961,082 -–5180_44ba1_MAT_combinedsscle_02g020260
MAT1-2-1core MAThit onlyDIAMOND, proteome99.7cov 100.0%7.2e-292782 bits2,961,572–2,962,860 +–5180_44ba1_MAT_combinedsscle_02g020270
MAT1-1-3core MATlost to MAT1-2-1, not countedhit onlytblastn33.3cov 40.0%1.3e-0957 bits2,962,177–2,962,446 +–5518_3639_MAT_combinedsscle_02g020270
MAT1-1-5core MAThit onlyDIAMOND, proteome100.0cov 100.0%1.9e-287769 bits2,963,823–2,965,125 -–5180_44ba1_MAT_combinedsscle_02g020280
APN2conserved flankhit onlyDIAMOND, proteome94.1cov 100.0%< 1e-180899 bits2,968,030–2,970,256 -–28548_06cwm-g22_MAT_combinedsscle_02g020290
COX13conserved flankhit onlyDIAMOND, proteome64.4cov 78.5%1.6e-48145 bits2,970,644–2,971,253 +–578113_sxlc146_MAT_MAT1-2sscle_02g020300

Withheld candidate loci 1

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 (1).

Show the 1 withheld locus

Withheld loci (1)

familylocationidiomorph genesmodelledreason
MATCP017821:1,357,397–1,360,084MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
Ssclerotiorum1980UF-70.genome.fasta
Assembly
16 contigs · 38.9 Mb · N50 2.4 Mb
Genome SHA-256
cbce8d042555c4ed90db8220db849acbc7b3e9f376e52572516b716587be0cbe
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': 28983, '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 28983', 'routed_by': 'family taxid 28983 (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
2026-11-07T01:49:01Z
Run time
63 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