Effective results for Ramlibacter tataouinensis TTB310 (eggnog40)

Summary

Number of putative secreted proteins: 24
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 8 eukaryotic-like domains, contained in 24 proteins (0 high, 24 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): None

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
365046.Rta_04070				(PF12974)	ER
365046.Rta_20380				(PF12974)	(mitochondrial); mitochondrial
365046.Rta_00630				(PF06779)	ER
365046.Rta_20360				(PF12974)	ER
365046.Rta_05940				(PF06779)	ER
365046.Rta_33570				(PF12974)	mitochondrial
365046.Rta_14940				(PF12974)	ER; (ER)
365046.Rta_13870				(PF12974)	ER
365046.Rta_22540				(PF12974)	ER; (ER)
365046.Rta_20390				(PF12974)	plastid
365046.Rta_23710				(PF02201)	(mitochondrial)
365046.Rta_05280				(PF10685)	plastid
365046.Rta_04710				(PF01176)
365046.Rta_06820				(PF01896)
365046.Rta_21240				(PF07958)
365046.Rta_21230				(PF12471)
365046.Rta_07780				(PF01896)
365046.Rta_37530				(PF02201)
365046.Rta_10220				(PF10685)
365046.Rta_20910				(PF10685)
365046.Rta_36100				(PF01176)
365046.Rta_01920				(PF06779)
365046.Rta_27590				(PF01176)
365046.Rta_35870				(PF10685)

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: NO (FDR = 7.7 %)

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=
==========================================================