Assembly
SPX
BioProject PRJNA1081640 · BioSample SAMN40182996
GENOME-RESOLVED EVIDENCE
GCA_041428605.1
Sporomusa paucivorans · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 4787310 bp · GC 47.500%
Completeness —% · contamination —%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 3/3 | 1.000 | Complete marker set |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 3/8 | 0.375 | Partial/absent |
| lactate_entry_support | 2/2 | 1.000 | Complete marker set |
| reverse_beta_oxidation_core | 3/4 | 0.750 | Partial/absent |
| rnf_complex | 6/6 | 1.000 | Complete marker set |
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 |
|---|---|---|---|---|
| bcdWP_188398227.1 · acyl-CoA dehydrogenase | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 595.400 / 1.00000 | Annotation: bcd_etfAB_neighborhood |
| bcdWP_250729197.1 · acyl-CoA dehydrogenase | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 595.200 / 1.00000 | Annotation: bcd_etfAB_neighborhood |
| bcdWP_342465691.1 · acyl-CoA dehydrogenase | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 584.000 / 1.00000 | Annotation: bcd_etfAB_neighborhood |
| etfAWP_188398225.1 · electron transfer flavoprotein subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 456.600 / 0.98200 | Bridge orthogroup OG0001385 |
| etfAWP_075752287.1 · electron transfer flavoprotein subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 456.200 / 0.97900 | Bridge orthogroup OG0001385 |
| etfAWP_250729027.1 · electron transfer flavoprotein subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 452.800 / 0.97900 | Bridge orthogroup OG0001385 |
| etfAWP_250727228.1 · electron transfer flavoprotein subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 443.000 / 0.98800 | Bridge orthogroup OG0001385 |
| etfAWP_342466694.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 439.200 / 0.97300 | Bridge orthogroup OG0002903 |
| etfAWP_342465689.1 · electron transfer flavoprotein subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 425.900 / 0.98500 | Bridge orthogroup OG0001385 |
| etfBWP_188398226.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 386.500 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_342465690.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 384.700 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_342466688.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 384.400 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_075752289.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 384.400 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_250729025.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 375.200 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_342466693.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 355.700 / 0.99600 | Bridge orthogroup OG0002348 |
| fabDWP_250728291.1 · ACP S-malonyltransferase | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 389.700 / 0.98700 | Annotation: gene_symbol |
| fabFWP_342465906.1 · beta-ketoacyl-ACP synthase II | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 662.000 / 0.99300 | Annotation: gene_symbol |
| fabGWP_250728289.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 285.100 / 0.99600 | Bridge orthogroup OG0000008 |
| fabZWP_075757254.1 · 3-hydroxyacyl-ACP dehydratase FabZ | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 165.500 / 0.75400 | Bridge orthogroup OG0000074 |
| hbdWP_250727025.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 339.200 / 0.98900 | Bridge orthogroup OG0000153 |
| hbdWP_188398221.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 251.400 / 0.98900 | Bridge orthogroup OG0000153 |
| lctPWP_250725312.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 443.500 / 0.99000 | Bridge orthogroup OG0000731 |
| lctPWP_075754421.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 431.800 / 0.98400 | Bridge orthogroup OG0000731 |
| lctPWP_342466460.1 · lactate permease LctP family transporter | High | Approved candidatestrong profile and bridge orthogroup support | 368.900 / 0.97800 | Bridge orthogroup OG0000731 |
| ldhWP_324324952.1 · lactate dehydrogenase | High | Approved candidatestrong profile and bridge orthogroup support | 252.800 / 0.97500 | Bridge orthogroup OG0001800 |
| rnfAWP_075754585.1 · electron transport complex protein RnfA | High | Approved candidatestrong profile and bridge orthogroup support | 270.700 / 0.99500 | Bridge orthogroup OG0001169 |
| rnfBWP_342466514.1 · RnfABCDGE type electron transport complex subunit B | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 337.600 / 0.92900 | Bridge orthogroup OG0001404 |
| rnfCWP_075754579.1 · electron transport complex subunit RsxC | High | Approved candidatestrong profile and bridge orthogroup support | 414.400 / 0.74800 | Bridge orthogroup OG0001114 |
| rnfDWP_075754581.1 · RnfABCDGE type electron transport complex subunit D | High | Approved candidatestrong profile and bridge orthogroup support | 501.000 / 0.95600 | Bridge orthogroup OG0001182 |
| rnfEWP_223226006.1 · electron transport complex subunit RsxE | High | Approved candidatestrong profile and bridge orthogroup support | 272.300 / 0.96200 | Bridge orthogroup OG0001153 |
| rnfGWP_075754583.1 · RnfABCDGE type electron transport complex subunit G | High | Approved candidatestrong profile and bridge orthogroup support | 149.300 / 0.90700 | Bridge orthogroup OG0001292 |
| thlWP_075753365.1 · thiolase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 494.200 / 0.99700 | Bridge orthogroup OG0000010 |
| accCWP_250726261.1 · pyruvate carboxylase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 517.200 / 0.98400 | Profile only |
| bcdWP_250729035.1 · acyl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 581.600 / 1.00000 | Profile only |
| bcdWP_075755512.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 488.400 / 0.99700 | Profile only |
| bcdWP_250726607.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 487.000 / 1.00000 | Profile only |
| bcdWP_308507636.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 418.500 / 0.99200 | Profile only |
| bcdWP_188399962.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 366.100 / 0.99700 | Profile only |
| crtWP_188398224.1 · short-chain-enoyl-CoA hydratase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 379.900 / 0.99600 | Annotation: specific_product_name |
| crtWP_250729033.1 · enoyl-CoA hydratase-related protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 359.700 / 0.99600 | Annotation: specific_product_name |
| crtWP_342465686.1 · enoyl-CoA hydratase-related protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 352.000 / 0.98100 | Annotation: specific_product_name |
| etfAWP_342465986.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 355.300 / 0.96700 | Profile only |
| etfAWP_188399964.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 206.000 / 0.92300 | Profile only |
| etfBWP_250726598.1 · electron transfer flavoprotein subunit beta/FixA family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 206.200 / 0.98900 | Profile only |
| fabGWP_250729191.1 · beta-ketoacyl-ACP reductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 245.900 / 0.98400 | Bridge orthogroup OG0000008 |
| fabGWP_075753357.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 228.400 / 0.98000 | Profile only |
| fabGWP_342466762.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 210.500 / 0.98800 | Profile only |
| fabGWP_188400090.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 198.300 / 0.98400 | Profile only |
| fabGWP_373325374.1 · SDR family NAD(P)-dependent oxidoreductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 181.700 / 0.98400 | Bridge orthogroup OG0000008 |
| fabGWP_373325882.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 176.700 / 0.98800 | Profile only |
| fabHWP_075754959.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 344.400 / 0.99400 | Profile only |
| fabHWP_188399254.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 342.900 / 0.99400 | Profile only |
| fabKWP_373325917.1 · DUF561 domain-containing protein | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 439.800 / 0.92400 | Profile only |
| fabKWP_342466665.1 · nitronate monooxygenase | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 412.800 / 0.98400 | Profile only |
| fabKWP_075754969.1 · nitronate monooxygenase family protein | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 263.000 / 0.93300 | Profile only |
| fabLWP_075753357.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 209.700 / 0.97200 | Profile only |
| fabLWP_342466762.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 196.800 / 0.98800 | Profile only |
| fabLWP_250729191.1 · beta-ketoacyl-ACP reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 195.600 / 0.98800 | Profile only |
| fabLWP_373325374.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 185.800 / 0.97200 | Profile only |
| fabLWP_188400090.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 185.400 / 0.97200 | Profile only |
| fabLWP_373325882.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 173.000 / 0.97200 | Profile only |
| hbdWP_075752283.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 413.100 / 1.00000 | Profile only |
| hbdWP_342467073.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 409.900 / 0.99600 | Profile only |
| hbdWP_250729031.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 403.600 / 0.99600 | Profile only |
| hbdWP_342465835.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 396.600 / 0.99300 | Profile only |
| rnfCWP_324324892.1 · SLBB domain-containing protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 500.200 / 0.99100 | Profile only |
| thlWP_250729196.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 615.600 / 0.99700 | Profile only |
| thlWP_342465687.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 607.800 / 0.99700 | Profile only |
| thlWP_250727033.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 606.600 / 0.99700 | Profile only |
| fabLWP_250728289.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | Medium | RejectedSpecific CDD hits identify the sequence as FabG/3-oxoacyl-ACP reductase rather than FabL. | 224.800 / 0.97200 | Annotation: CDD_competing_FabG_signature |
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.