Assembly
ASM2672376v1
BioProject PRJNA906722 · BioSample SAMN31936216
GENOME-RESOLVED EVIDENCE
GCA_026723765.1
Lacrimispora xylanolytica · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 4516221 bp · GC 42.500%
Completeness —% · contamination —%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 3/3 | 1.000 | Complete marker set |
| ethanol_entry_support | 1/1 | 1.000 | Complete marker set |
| fatty_acid_biosynthesis_core | 6/8 | 0.750 | Partial/absent |
| lactate_entry_support | 1/2 | 0.500 | Partial/absent |
| reverse_beta_oxidation_core | 4/4 | 1.000 | Complete marker set |
| rnf_complex | 4/6 | 0.667 | Partial/absent |
Detected markers
| Marker | Function | Copies |
|---|
Profile-HMM marker predictions
Approved candidates and review records are genomic predictions, not evidence of expression or MCFA production. Excluded matches remain visible for audit.
| Marker / protein | Confidence | Review status | Score / coverage | Supporting evidence |
|---|---|---|---|---|
| accBWP_268115190.1 · acetyl-CoA carboxylase biotin carboxyl carrier protein | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 156.300 / 0.98800 | Annotation: gene_symbol |
| accDWP_268115188.1 · acetyl-CoA carboxylase carboxyltransferase subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 446.800 / 0.98300 | Bridge orthogroup OG0000844 |
| adhEWP_268115222.1 · bifunctional acetaldehyde-CoA/alcohol dehydrogenase | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 1519.400 / 0.99400 | Bridge orthogroup OG0002334 |
| bcdWP_024836516.1 · acyl-CoA dehydrogenase family protein | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 446.900 / 0.99700 | Annotation: bcd_etfAB_neighborhood |
| coatWP_024836918.1 · 3-oxoacid CoA-transferase subunit B | Medium | Approved candidatestrong profile plus independent annotation support: specific_product_name | 262.000 / 0.99500 | Annotation: specific_product_name |
| coatWP_268114381.1 · 3-oxoacid CoA-transferase subunit B | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 248.000 / 0.96800 | Bridge orthogroup OG0004934 |
| coatWP_268114382.1 · CoA transferase subunit A | Medium | Approved candidatestrong profile plus independent annotation support: specific_product_name | 110.900 / 0.69600 | Bridge orthogroup OG0000263 |
| coatWP_024836919.1 · CoA transferase subunit A | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 99.200 / 0.71000 | Bridge orthogroup OG0000263 |
| crtWP_268116231.1 · enoyl-CoA hydratase-related protein | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 356.100 / 0.98500 | Bridge orthogroup OG0002531 |
| crtWP_197029658.1 · enoyl-CoA hydratase/isomerase family protein | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 175.500 / 0.88800 | Bridge orthogroup OG0015082 |
| crtWP_268116582.1 · enoyl-CoA hydratase/isomerase family protein | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 158.100 / 0.76100 | Bridge orthogroup OG0015083 |
| etfAWP_268114125.1 · electron transfer flavoprotein subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 450.400 / 0.98200 | Bridge orthogroup OG0002903 |
| etfAWP_268116241.1 · electron transfer flavoprotein subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 435.500 / 0.97900 | Bridge orthogroup OG0002903 |
| etfBWP_024836512.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 358.800 / 1.00000 | Bridge orthogroup OG0002348 |
| etfBWP_268114126.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 350.100 / 0.99600 | Bridge orthogroup OG0002348 |
| fabDWP_268115192.1 · ACP S-malonyltransferase | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 343.300 / 0.96500 | Annotation: gene_symbol |
| fabFWP_268115191.1 · beta-ketoacyl-ACP synthase II | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 568.800 / 0.99300 | Annotation: gene_symbol |
| fabGWP_024837930.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 264.700 / 0.99600 | Bridge orthogroup OG0000008 |
| fabHWP_024836622.1 · 3-oxoacyl-ACP synthase III family protein | Medium | Approved candidatestrong profile plus independent annotation support: specific_product_name | 377.200 / 0.98800 | Annotation: specific_product_name |
| fabHWP_268116132.1 · 3-oxoacyl-ACP synthase III family protein | Medium | Approved candidatestrong profile plus independent annotation support: specific_product_name | 223.900 / 0.97600 | Annotation: specific_product_name |
| fabKWP_024837928.1 · enoyl-[acyl-carrier-protein] reductase FabK | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 507.300 / 0.97100 | Annotation: gene_symbol |
| fabZWP_024837933.1 · 3-hydroxyacyl-ACP dehydratase FabZ | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 191.800 / 0.76000 | Bridge orthogroup OG0000074 |
| hbdWP_268114387.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 222.200 / 0.98600 | Bridge orthogroup OG0000153 |
| lctPWP_268116239.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 695.900 / 0.98600 | Bridge orthogroup OG0000731 |
| rnfAWP_268114284.1 · electron transport complex protein RnfA | High | Approved candidatestrong profile and bridge orthogroup support | 265.900 / 0.99500 | Bridge orthogroup OG0001169 |
| rnfCWP_268114287.1 · electron transport complex subunit RsxC | High | Approved candidatestrong profile and bridge orthogroup support | 361.900 / 0.76200 | Bridge orthogroup OG0001114 |
| rnfDWP_268114286.1 · RnfABCDGE type electron transport complex subunit D | High | Approved candidatestrong profile and bridge orthogroup support | 313.800 / 0.94100 | Bridge orthogroup OG0001182 |
| rnfEWP_024835590.1 · electron transport complex subunit RsxE | High | Approved candidatestrong profile and bridge orthogroup support | 260.800 / 0.92300 | Bridge orthogroup OG0001153 |
| thlWP_416861720.1 · acetyl-CoA C-acetyltransferase | High | Approved candidatestrong profile and bridge orthogroup support | 532.500 / 0.99700 | Bridge orthogroup OG0000010 |
| accCWP_268115189.1 · acetyl-CoA carboxylase biotin carboxylase subunit | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 743.000 / 0.99100 | Profile only |
| etfAWP_268116238.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 334.800 / 0.98200 | Profile only |
| etfBWP_268116236.1 · electron transfer flavoprotein subunit beta/FixA family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 235.500 / 0.99200 | Profile only |
| fabFWP_268116141.1 · beta-ketoacyl-[acyl-carrier-protein] synthase family protein | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 411.200 / 0.99800 | Profile only |
| fabFWP_268116112.1 · beta-ketoacyl-[acyl-carrier-protein] synthase family protein | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 370.600 / 0.99500 | Profile only |
| fabGWP_268115641.1 · elongation factor P 5-aminopentanone reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 239.900 / 0.97600 | Profile only |
| fabGWP_024838091.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 209.200 / 0.98000 | Profile only |
| fabGWP_024836728.1 · gluconate 5-dehydrogenase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 206.400 / 0.98400 | Profile only |
| fabGWP_024836665.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 199.200 / 0.96800 | Profile only |
| fabGWP_268115215.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 190.300 / 0.97600 | Profile only |
| fabGWP_024835795.1 · 3-ketoacyl-ACP reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 180.300 / 0.96800 | Profile only |
| fabGWP_024836658.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 175.500 / 0.96800 | Profile only |
| fabGWP_268116420.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 173.400 / 0.98800 | Profile only |
| fabGWP_268114385.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 158.600 / 0.97600 | Profile only |
| fabGWP_024838589.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 140.400 / 0.97600 | Profile only |
| fabGWP_268114146.1 · SDR family NAD(P)-dependent oxidoreductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 98.300 / 0.76600 | Bridge orthogroup OG0000242 |
| fabHWP_268115193.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 317.500 / 0.98800 | Profile only |
| fabLWP_024836658.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 265.900 / 0.97200 | Profile only |
| fabLWP_024837930.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 225.300 / 0.97600 | Profile only |
| fabLWP_268115641.1 · elongation factor P 5-aminopentanone reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 196.500 / 0.98000 | Profile only |
| fabLWP_024838091.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 189.900 / 0.98800 | Profile only |
| fabLWP_268115215.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 189.300 / 0.99200 | Profile only |
| fabLWP_024836728.1 · gluconate 5-dehydrogenase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 177.900 / 0.97600 | Profile only |
| fabLWP_268116420.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 172.000 / 0.98000 | Profile only |
| fabLWP_024835795.1 · 3-ketoacyl-ACP reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 153.300 / 0.97200 | Profile only |
| fabLWP_024836665.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 150.000 / 0.96400 | Profile only |
| fabLWP_268114385.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 137.200 / 0.97200 | Profile only |
| fabLWP_024838589.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 126.600 / 0.97600 | Profile only |
| hbdWP_268116232.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 390.500 / 0.98600 | Profile only |
| lctPWP_024835891.1 · L-lactate permease | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 693.500 / 0.99000 | Profile only |
| ldhWP_024838463.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 450.100 / 0.99100 | Profile only |
| ldhWP_024838320.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 430.400 / 0.98100 | Profile only |
| ldhWP_268115300.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 344.600 / 0.98100 | Profile only |
| thlWP_268116585.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 612.500 / 0.99500 | Profile only |
| thlWP_268114383.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 607.600 / 0.99700 | Profile only |
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.