MATPredict · mating-type report

NglabratusCBS138

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 loci

MATalphamedium confidenceMATalphamedium confidence

Called loci 2

MATalpha MATsc family · Ascomycota

medium confidence
Gene order of the MATalpha locus on ChrB_C_glabrata_CBS138MATalpha locus: genes from left to right on ChrB_C_glabrata_CBS138, 10,582 to 12,102: MATALPHA1 (core MAT gene, minus strand); MATA2 (core MAT gene, plus strand); MATALPHA2 (core MAT gene, plus strand).10.5 kb11.0 kb11.5 kb12.0 kb← 10.3 kb more to contig endcalled locusMATALPHA1: core MAT gene, 10,582–11,136 (-), identity 44.9%, search hit onlyMATALPHA1MATA2: core MAT gene, 11,470–12,102 (+), identity 52.6%, search hit onlyMATA2MATALPHA2: core MAT gene, 11,470–12,102 (+), identity 49.3%, search hit onlyMATALPHA2
Gene order on ChrB_C_glabrata_CBS138. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on ChrB_C_glabrata_CBS138, 10,282 to 12,402CAGL0B00286g 9,115-15,952 (-): Ortholog(s) have L-serine ammonia-lyase activity, L-threonine ammonia-lyase activity, role in L-serine catabolic process, threonine catabolic process and mitochondrial nucleoid localizationCAGL0B00286gCAGL0B00220g 10,286-11,311 (+): Has domain(s) with predicted rRNA (pseudouridine) methyltransferase activity and role in rRNA base methylationCAGL0B00220gCAGL0B00242g 10,582-11,136 (-): Alpha-domain mating-type protein alpha1pCAGL0B00242gCAGL0B00264g 11,470-12,102 (+): Homeobox-domain protein alpha2CAGL0B00264g MTLalpha2
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
ChrB_C_glabrata_CBS138:10,582–12,102 · 1.5 kb
Cross-lineage class
MAT1-1
Own genes
ChrB_C_glabrata_CBS138:10,582–12,102 · 1.5 kb
Locus
Genes of both idiomorphs at one locus.
Genes modelled
2 of 3 gene hits
Nearest contig end
10.6 kb
Region (samtools)
ChrB_C_glabrata_CBS138:10582-12102
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 bits10,582–11,136 -–4932_s288c_MATsc_MATalphaCAGL0B00286g
CAGL0B00220g (opposite strand)
CAGL0B00242g
MATA2core MAThit onlyDIAMOND, proteome52.6cov 75.6%3.6e-2996 bits11,470–12,102 +–4932_s288c_MATsc_HMRaCAGL0B00286g (opposite strand)
CAGL0B00264g MTLalpha2
MATALPHA2core MAThit onlyDIAMOND, proteome49.3cov 30.5%7.4e-39123 bits11,470–12,102 +–28985_nrrl-y-1140_MATsc_HMLalphaCAGL0B00286g (opposite strand)
CAGL0B00264g MTLalpha2
MATALPHA2expected, not found–
MATA1expected, not found–
cha1not searchable: no reference protein in the database–

MATalpha MATsc family · Ascomycota

medium confidence
Gene order of the MATalpha locus on ChrB_C_glabrata_CBS138MATalpha locus: genes from left to right on ChrB_C_glabrata_CBS138, 112,831 to 114,279: MATALPHA1 (core MAT gene, minus strand); MATA2 (core MAT gene, plus strand); MATALPHA2 (core MAT gene, plus strand).113.0 kb113.5 kb114.0 kb114.5 kb← 112.5 kb more to contig endcalled locusMATALPHA1: core MAT gene, 112,831–113,262 (-), identity 44.9%, search hit onlyMATALPHA1MATA2: core MAT gene, 113,719–114,279 (+), identity 52.0%, search hit onlyMATA2MATALPHA2: core MAT gene, 113,719–114,279 (+), identity 48.4%, search hit onlyMATALPHA2
Gene order on ChrB_C_glabrata_CBS138. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on ChrB_C_glabrata_CBS138, 112,531 to 114,579CAGL0B01232g 112,146-113,560 (+): Ortholog(s) have rRNA (pseudouridine) methyltransferase activityCAGL0B01232g EMG1CAGL0B01243g 112,831-113,262 (-): Alpha-domain mating-type protein alpha1p, expressed in all MTLalpha strains and not in MTLa strainsCAGL0B01243g MATalpha1CAGL0B01287g 113,286-118,665 (+): Has domain(s) with predicted guanyl-nucleotide exchange factor activity, role in regulation of small GTPase mediated signal transduction, small GTPase mediated signal transduction and intracellular anatomical structure localizationCAGL0B01287g BUD5CAGL0B01265g 113,719-114,279 (+): Mating-type regulatory protein alpha2, expressed in all MTLalpha strains and not in MTLa strainsCAGL0B01265g MATalpha2
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
ChrB_C_glabrata_CBS138:112,831–114,279 · 1.4 kb
Cross-lineage class
MAT1-1
Own genes
ChrB_C_glabrata_CBS138:112,831–114,279 · 1.4 kb
Locus
Genes of both idiomorphs at one locus.
Genes modelled
2 of 3 gene hits
Nearest contig end
112.8 kb
Region (samtools)
ChrB_C_glabrata_CBS138:112831-114279
Idiomorph scores
  • MATalpha 87.4

Margin over the set-aside MATALPHA2 hit: 3.6 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
MATA252.0MATALPHA248.4100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MATALPHA1core MAThit onlyDIAMOND, proteome44.9cov 50.9%4.0e-2687 bits112,831–113,262 -–4932_s288c_MATsc_MATalphaCAGL0B01232g EMG1 (opposite strand)
CAGL0B01243g MATalpha1
MATA2core MAThit onlyDIAMOND, proteome52.0cov 77.3%9.0e-3097 bits113,719–114,279 +–4932_s288c_MATsc_HMRaCAGL0B01287g BUD5
CAGL0B01265g MATalpha2
MATALPHA2core MAThit onlyDIAMOND, proteome48.4cov 27.8%1.7e-39124 bits113,719–114,279 +–28985_nrrl-y-1140_MATsc_HMLalphaCAGL0B01287g BUD5
CAGL0B01265g MATalpha2
MATALPHA2expected, not found–
MATA1expected, not found–
cha1not searchable: no reference protein in the database–

Withheld candidate loci 37

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 (37).

Show the 37 withheld loci

Withheld loci (37)

familylocationidiomorph genesmodelledreason
MATscChrJ_C_glabrata_CBS138:21,987–22,160MATaMATA10fewer than 2 genes could be modelled
MATscChrJ_C_glabrata_CBS138:730,258–751,194undeterminedMATALPHA2, sla21fewer than 2 genes could be modelled
MATscChrJ_C_glabrata_CBS138:989,713–989,826undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrJ_C_glabrata_CBS138:1,041,742–1,041,837MATaMATA10fewer than 2 genes could be modelled
MATscChrK_C_glabrata_CBS138:263,185–263,277MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrK_C_glabrata_CBS138:379,918–380,025undeterminedMATA20fewer than 2 genes could be modelled
MATscChrK_C_glabrata_CBS138:687,832–688,047MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrK_C_glabrata_CBS138:1,037,146–1,037,352undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrK_C_glabrata_CBS138:1,248,182–1,248,358MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrA_C_glabrata_CBS138:326,849–327,088MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrI_C_glabrata_CBS138:113,391–113,606MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrI_C_glabrata_CBS138:325,974–326,075MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrI_C_glabrata_CBS138:531,986–532,258MATaMATA10fewer than 2 genes could be modelled
MATscChrI_C_glabrata_CBS138:606,106–606,426undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrI_C_glabrata_CBS138:712,545–712,721MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrI_C_glabrata_CBS138:912,030–912,236MATaMATA10fewer than 2 genes could be modelled
MATscChrE_C_glabrata_CBS138:29,116–30,342MATaMATALPHA1, MATALPHA2, MATA11fewer than 2 genes could be modelled
MATscChrC_C_glabrata_CBS138:169,430–169,690undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrH_C_glabrata_CBS138:278,011–278,226undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrH_C_glabrata_CBS138:309,064–309,273MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrH_C_glabrata_CBS138:557,551–557,742MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrG_C_glabrata_CBS138:53,977–54,168undeterminedMATALPHA2, MATA20fewer than 2 genes could be modelled
MATscChrG_C_glabrata_CBS138:572,335–572,436undeterminedMATA20fewer than 2 genes could be modelled
MATscChrG_C_glabrata_CBS138:688,585–688,758MATaMATA10fewer than 2 genes could be modelled
MATscChrG_C_glabrata_CBS138:755,403–755,576undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrM_C_glabrata_CBS138:570,161–575,853MATalphaMATALPHA1, MATALPHA20fewer than 2 genes could be modelled
MATscChrM_C_glabrata_CBS138:657,087–657,209MATaMATA10fewer than 2 genes could be modelled
MATscChrM_C_glabrata_CBS138:855,160–855,264MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrD_C_glabrata_CBS138:28,390–28,494MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrD_C_glabrata_CBS138:179,455–179,592undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrD_C_glabrata_CBS138:518,093–518,326undeterminedMATA20fewer than 2 genes could be modelled
MATscChrD_C_glabrata_CBS138:545,331–545,474undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrL_C_glabrata_CBS138:820,528–820,722MATaMATA10fewer than 2 genes could be modelled
MATscChrL_C_glabrata_CBS138:937,353–937,457undeterminedMATALPHA20fewer than 2 genes could be modelled
MATscChrF_C_glabrata_CBS138:132,820–133,071MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrF_C_glabrata_CBS138:510,917–511,039MATalphaMATALPHA10fewer than 2 genes could be modelled
MATscChrF_C_glabrata_CBS138:561,118–561,279MATaMATA10fewer than 2 genes could be modelled

Provenance

Genome file
NglabratusCBS138.genome.fasta
Assembly
14 contigs · 12.3 Mb · N50 1.1 Mb
Genome SHA-256
7fe54a876ec2ad744d9d9d5f6cb490bee1c97ebd9590237d5b3700f0025087de
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
2026-11-07T02:41:23Z
Run time
16 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