Effective results for Rickettsia prowazekii str. Madrid E (eggnog40)

Summary

Number of putative secreted proteins: 44
- Predicted by T4SEpre: 40
- Predicted by EffectiveELD: 5 eukaryotic-like domains, contained in 9 proteins (7 high, 2 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): Type IV

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
272947.RP874			+		(mitochondrial)
272947.RP739				PF03219	mitochondrial; (mitochondrial)
272947.RP837				(PF03959)	ER
272947.RP305				(PF05637)	ER
272947.RP864			+		ER
272947.RP269			+		ER
272947.RP413			+		ER
272947.RP224			+		ER
272947.RP458			+		ER
272947.RP123			+		ER
272947.RP688			+		(mitochondrial)
272947.RP198			+		ER
272947.RP395			+		ER
272947.RP038			+		ER
272947.RP771			+		ER
272947.RP051			+		(ER)
272947.RP648			+		(mitochondrial)
272947.RP538			+		(mitochondrial)
272947.RP803			+
272947.RP377				PF03219
272947.RP374				PF01369
272947.RP277			+
272947.RP017			+
272947.RP083			+
272947.RP462			+
272947.RP303			+
272947.RP740			+
272947.RP820			+
272947.RP454			+
272947.RP498			+
272947.RP564			+
272947.RP323			+
272947.RP102			+
272947.RP419			+
272947.RP617			+
272947.RP028			+
272947.RP021				PF02326
272947.RP153			+
272947.RP200			+
272947.RP788			+
272947.RP477				PF03219
272947.RP504			+
272947.RP500				PF03219
272947.RP053				PF03219

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

• T4SEpre bpbAac predictions (T4SEpre_bpbAac_FinalResult.csv)
• T4SEpre psAac predictions (T4SEpre_psAac_FinalResult.csv)
• 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: YES (FDR = 7.2 %)
  Estimated copy number = 1.5 (15/10 KEGG proteins)
• 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=
==========================================================