CcarrioniiCBS160.54 – MATPredict report

Result

No MAT locus called

No family reached the evidence bar. That is weak evidence that the locus is absent: a fragmented assembly, or a lineage far from every reference, often explains it.

Next: check the withheld candidate loci below against a known locus, or type the strain from its reads.

What was searched

Routing: By taxonomy. The genome's taxonomy falls inside a curated family's scope; only those families were searched.
Families searched: Ascomycota:MAT
Genetic code: 1
Taxonomy: local NCBI taxonomy snapshot 2026-10-01

Families searched but not called

family	reason	best % of genes found	genes found
Ascomycota:MAT	best cluster carried 1 modelled gene(s), below the 2 required to report a locus; only 1 of its genes could be modelled	40.0	MAT1-1-1, MAT1-2-1

Withheld candidate loci 31

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 (25); too few of the family's genes found (6).

Show the 31 withheld loci

Withheld loci (31)

family	location	idiomorph	genes	modelled	reason
MAT	KB822697:817,183–831,733	MAT1-2	MAT1-1-1, MAT1-2-1	1	fewer than 2 genes could be modelled
MAT	KB822697:3,771,497–3,790,803	MAT1-2	MAT1-2-1, MAT1-1-3	0	fewer than 2 genes could be modelled
MAT	KB822697:4,546,203–4,559,705	MAT1-2	MAT1-1-1, MAT1-2-1	0	fewer than 2 genes could be modelled
MAT	KB822697:5,646,260–5,660,433	MAT1-1	MAT1-1-1, MAT1-2-7	0	fewer than 2 genes could be modelled
MAT	KB822700:279,082–291,203	MAT1-1	COX13, MAT1-1-2	1	fewer than 2 genes could be modelled
MAT	KB822706:1,675,185–1,686,299	MAT1-2	MAT1-2-1, MAT1-1-5	1	fewer than 2 genes could be modelled
MAT	KB822706:1,875,348–1,889,936	MAT1-1	MAT1-1-2, MAT1-1-3	0	fewer than 2 genes could be modelled
MAT	KB822706:2,322,832–2,332,213	MAT1-2	MAT1-1-1, MAT1-2-1	0	fewer than 2 genes could be modelled
MAT	KI635850:531,649–554,068	MAT1-2	MAT1-2-1, MAT1-2-10	0	fewer than 2 genes could be modelled
MAT	KB822707:1,856,883–1,878,685	MAT1-2	MAT1-1-1, MAT1-2-1	0	fewer than 2 genes could be modelled
MAT	KB822707:2,489,137–2,518,282	MAT1-1	MAT1-2-1, MAT1-1-2, MAT1-2-10	0	fewer than 2 genes could be modelled
MAT	KB822707:3,021,686–3,040,182	MAT1-1	MAT1-2-1, MAT1-1-2	0	fewer than 2 genes could be modelled
MAT	KB822703:62,219–69,736	MAT1-2	MAT1-2-1, MAT1-1-3	0	fewer than 2 genes could be modelled
MAT	KB822703:1,001,979–1,010,589	MAT1-1	MAT1-1-1, MAT1-1-2	0	fewer than 2 genes could be modelled
MAT	KB822703:2,577,729–2,595,457	MAT1-1	MAT1-1-2, MAT1-1-3	0	fewer than 2 genes could be modelled
MAT	KB822703:2,856,103–2,906,079	undetermined	MAT1-1-1, MAT1-2-1, MAT1-1-5	0	fewer than 2 genes could be modelled
MAT	KB822705:275,766–293,881	MAT1-2	MAT1-1-3, MAT1-2-10	0	fewer than 2 genes could be modelled
MAT	KB822705:620,307–629,846	MAT1-1	MAT1-1-1, MAT1-1-2	0	fewer than 2 genes could be modelled
MAT	KB822705:1,426,551–1,436,216	MAT1-2	MAT1-2-4, MAT1-1-4	0	fewer than 2 genes could be modelled
MAT	KB822705:3,161,637–3,178,272	MAT1-1	MAT1-1-1, MAT1-2-1	0	fewer than 2 genes could be modelled
MAT	KB822708:158,028–176,067	MAT1-2	MAT1-1-1, MAT1-2-1	0	fewer than 2 genes could be modelled
MAT	KB822708:235,350–242,779	MAT1-1	MAT1-2-1, MAT1-1-2	0	fewer than 2 genes could be modelled
MAT	KB822704:277,595–289,877	MAT1-1	MAT1-1-3, MAT1-1-5	0	fewer than 2 genes could be modelled
MAT	KB822704:2,664,129–2,687,913	MAT1-1	MAT1-1-3, MAT1-1-5	0	fewer than 2 genes could be modelled
MAT	KB822702:18,130–22,224	MAT1-1	MAT1-1-1, MAT1-2-1	0	fewer than 2 genes could be modelled
MAT	KB822697:817,183–831,733	MAT1-2	MAT1-1-1, MAT1-2-1	1	too few of the family's genes found
MAT	KB822700:279,082–291,203	MAT1-1	COX13, MAT1-1-2	1	too few of the family's genes found
MAT	KB822700:381,798–385,083	undetermined	SLA2	1	too few of the family's genes found
MAT	KB822700:470,283–471,599	MAT1-2	MAT1-2-1	1	too few of the family's genes found
MAT	KB822700:502,119–504,314	undetermined	APN2	1	too few of the family's genes found
MAT	KB822706:1,675,185–1,686,299	MAT1-2	MAT1-2-1, MAT1-1-5	1	too few of the family's genes found

Provenance

Genome file: CcarrioniiCBS160.54.genome.fasta
Assembly: 19 contigs · 29.0 Mb · N50 3.2 Mb
Genome SHA-256: 408a789888b789c174b138c3c555a8a9e7b297f1f6c330454dec1e106ee2e30f
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': 43219, 'routing_taxid_rank': 'family', 'flags': ['identical_to_reference'], '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 43219', 'routed_by': 'family taxid 43219 (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: 2026-11-07T01:48:53Z
Run time: 61 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.

Limits

MATPredict reads an assembly; it is not a mating assay. Two idiomorphs in one assembly can come from a homothallic species, a mixed culture or a merged diploid assembly.
Fragmented assemblies can split a locus or lose its flanking genes; an uncalled genome is weak evidence of absence.
Lineages with no curated record are searched with the whole phylum's references; family labels there are less reliable.