MATPredict · mating-type report

Mcircinelloides1006PhL

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 01:49 UTC by MATPredict 0.8.1

Result

Mating type

Plushigh confidence

Called loci 1

Plus MAT family · Mucoromycota

high confidence
Gene order of the Plus locus on KE123975Plus locus: genes from left to right on KE123975, 61,475 to 76,278: glrA (variable flank, plus strand); rnhA (conserved flank, minus strand); sexP (core MAT gene, minus strand); sexM (core MAT gene, minus strand); tptA (conserved flank, plus strand); algA (variable flank, plus strand).65 kb70 kb75 kb← 60.7 kb more to contig endcalled locusglrA: variable flank, 61,475–63,051 (+), identity 86.5%, search hit onlyglrArnhA: conserved flank, 67,540–71,621 (-), identity 83.1%, search hit onlyrnhAsexP: core MAT gene, 71,964–72,932 (-), identity 76.0%, search hit onlysexPsexM: core MAT gene, 72,381–72,596 (-), identity 30.56%, gene modelsexM (lost to sexP)tptA: conserved flank, 73,156–74,602 (+), identity 83.5%, search hit onlytptAalgA: variable flank, 74,873–76,278 (+), identity 68.2%, search hit onlyalgA
Gene order on KE123975. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on KE123975, 60,735 to 77,017HMPREF1544_06110 61,475-63,051 (+): glutathione reductase (NADPH)HMPREF1544_06110HMPREF1544_06111 63,152-65,710 (-): hypothetical proteinHMPREF1544_06111HMPREF1544_06112 67,540-71,621 (-): hypothetical proteinHMPREF1544_06112HMPREF1544_06113 71,964-72,932 (-): hypothetical proteinHMPREF1544_06113HMPREF1544_06114 73,156-74,602 (+): hypothetical proteinHMPREF1544_06114HMPREF1544_06115 74,873-76,278 (+): hypothetical proteinHMPREF1544_06115HMPREF1544_06116 76,667-82,073 (+): hypothetical proteinHMPREF1544_06116
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
  • variable flank
  • gene model
  • search hit only
  • sexM is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
KE123975:61,475–76,278 · 14.8 kb
Own genes
KE123975:61,475–76,278 · 14.8 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
5 of 6 gene hits
Nearest contig end
61.5 kb
Region (samtools)
KE123975:61475-76278
Idiomorph scores
  • Plus 137.6
  • Minus 49.4

Margin over the next idiomorph: 88.2

Score: HMM bitscore of the MAT protein against each idiomorph's profile.

Profile-HMM classifier
  • Minus 49.4
  • Plus 137.6

Margin 88.2 (a call needs 25.0 or more). Scored: sexM (model).

Overlapping hits resolved

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

keptidentity %set asideidentity %overlap %basis
sexP76.0sexM42.0100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
glrAvariable flankhit onlyDIAMOND, proteome86.5cov 100.0%6.7e-304818 bits61,475–63,051 +–3108396_ai-2023a_MAT_PlusHMPREF1544_06110
rnhAconserved flankhit onlyDIAMOND, proteome83.1cov 100.0%< 1e-1802,097 bits67,540–71,621 -–36080_nrrl-3631_MAT_PlusHMPREF1544_06112
sexPcore MAThit onlyDIAMOND, proteome76.0cov 99.7%7.4e-179490 bits71,964–72,932 -–36080_nrrl-3631_MAT_PlusHMPREF1544_06113
sexMcore MATother idiomorph, not countedlost to sexP, not countedgene modelexonerate30.6cov 37.7%1.7e-0545 bits72,381–72,596 -164656_rsa-1403_MAT_MinusHMPREF1544_06113
tptAconserved flankhit onlyDIAMOND, proteome83.5cov 82.2%8.7e-222610 bits73,156–74,602 +–36080_nrrl-3631_MAT_PlusHMPREF1544_06114
algAvariable flankhit onlyDIAMOND, proteome68.2cov 99.2%1.0e-196540 bits74,873–76,278 +–29922_cbs109-16_MAT_MinusHMPREF1544_06115

Withheld candidate loci 15

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 (14); fewer than 2 genes could be modelled (1).

Show the 15 withheld loci

Withheld loci (15)

familylocationidiomorph genesmodelledreason
MATKE124029:42,977–49,517undeterminedsexP, sexM, glrA1fewer than 2 genes could be modelled
MATKE123909:75,220–98,090undeterminedtptA, sexM1too few of the family's genes found
MATKE123944:121,515–122,903undeterminedtptA1too few of the family's genes found
MATKE123949:122,729–159,635undeterminedsexP, btbA1too few of the family's genes found
MATKE123966:139,299–143,889undeterminedrnhA1too few of the family's genes found
MATKE123973:33,732–36,124undeterminedrnhA1too few of the family's genes found
MATKE123987:41,721–45,343undeterminedrnhA1too few of the family's genes found
MATKE124015:3,646–10,606undeterminedrnhA1too few of the family's genes found
MATKE124031:32,933–58,680undeterminedtptA, sexM1too few of the family's genes found
MATKE124040:9,765–27,898undeterminedsexM, glrA1too few of the family's genes found
MATKE124057:67,570–69,383undeterminedglrA1too few of the family's genes found
MATKE124079:22,454–26,432undeterminedrnhA1too few of the family's genes found
MATKE124085:6,742–7,954undeterminedtptA1too few of the family's genes found
MATKE124184:15,380–19,058undeterminedrnhA1too few of the family's genes found
MATKE123898:113,153–113,622undeterminedsexP, sexM1too few of the family's genes found

Provenance

Genome file
Mcircinelloides1006PhL.genome.fasta
Assembly
470 contigs · 36.3 Mb · N50 140.6 kb
Genome SHA-256
50d6f3d278c5e3404dd1c6e77e9ee35ec71f32920a7af3faa9762d989900fdb0
MATPredict
0.8.1 (v0.8.1, 3a62e6302b)
Database
86f18d232e4fe95d · 185 records
Taxonomy
local NCBI taxonomy snapshot 2026-10-01
Parameters
phylum=Mucoromycota, phylum_guess={'requested': 'auto', 'status': 'ok', 'usable': True, 'reason': None, 'phylum': 'Mucoromycota', 'phylum_taxid': 1913637, 'deepest_rank': 'species', 'routing_taxid': 34489, 'routing_taxid_rank': 'family', 'flags': ['high_N'], '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 Mucoromycota', 'action': 'routed', 'weak_call_accepted': False, 'genetic_code': 1, 'genetic_code_from': 'family taxid 34489', 'routed_by': 'family taxid 34489 (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
2026-11-07T01:48:18Z
Run time
43 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