Effective results for Vibrio cholerae O1 biovar El Tor str. N16961 (eggnog40)

Summary

Number of putative secreted proteins: 16
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 12 eukaryotic-like domains, contained in 16 proteins (2 high, 14 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): Type VI

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
243277.VCA0148				(PF10462)	(mitochondrial); plastid
243277.VC1496				(PF08180)	ER
243277.VC1457				PF01375	ER
243277.VCA0443				(PF08212)	ER
243277.VCA0096				(PF13582)	ER
243277.VCA0317				(PF08212)	ER
243277.VCA0406				(PF08212)	ER
243277.VCA0350				(PF08212)	ER
243277.VC0820				(PF10462)	ER; (ER)
243277.VCA0027				(PF02010)	(ER)
243277.VC1301				(PF01490)
243277.VC2608				PF09496
243277.VC1389				(PF10013)	not used
243277.VC1773				(PF07646)
243277.VC0838				(PF00165)
243277.VCA0374				(PF08847)

Detailed merged results for each protein sequence

• Detailed merged results as table (merge_results.html)
• Detailed merged results as tab delimited file (merge_results.csv)

Individual results for each protein sequence

• EffectiveELD predictions (PROTEINS.ELD.TXT)
• Predotar predictions using animal/human model (Predotar_output_modelANIMAL.TXT)
• Predotar predictions using plant model (Predotar_output_modelPLANT.TXT)

Genome based results

Summary

• Gram negative: YES (FDR = 0.5 %)
• Functional Type III secretion system: NO (FDR = 12.5 %)
• Functional Type IV secretion system: NO (FDR = 7.2 %)
• Functional Type VI secretion system: YES (FDR = 7.7 %)
  Estimated copy number = 1.25 (10/8 KEGG proteins)

Individual results for each secretion system

• List of 100 most important COGs/NOGs for prediction of functional Type III secretion system (T3_top100_COGS.xls)
• List of 100 most important COGs/NOGs for prediction of functional Type IV secretion system (T4_top100_COGS.xls)
• List of 100 most important COGs/NOGs for prediction of functional Type VI secretion system (T6_top100_COGS.xls)
• List of COGs assigned to Type III secretion system in KEGG (T3SS_KEGG_cmp.xls)
• List of COGs assigned to Type IV secretion system in KEGG (T4SS_KEGG_cmp.xls)
• List of COGs assigned to Type VI secretion system in KEGG (T6SS_KEGG_cmp.xls)

Parameters:

==========================================================
EFFECTIVE_T3_OLD=selective
EFFECTIVE_T3_NEW=selective
PREDOTAR_ANIMAL_OR_PLANT=a
PROTEINS=INPUT PROTEINS
MODUS=genome
RUN_PREDOTAR=T
RUN_EFFECTIVE_T3=T
RUN_T4SEpre=0.5
RUN_EFFECTIVE_CCBD=T
RUN_EFFECTIVE_ELD=4
CheckM_COMPLETENESS=
RUN_EffectiveS346=T
GENOTYPE=COG Profile
EMAIL=
==========================================================