Effective results for Prevotella nigrescens ATCC 33563 (eggnog40)

Summary

Number of putative secreted proteins: 31
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 17 eukaryotic-like domains, contained in 31 proteins (2 high, 29 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
997352.HMPREF9419_1724				(PF03051)	ER; (ER)
997352.HMPREF9419_2283				(PF13306)	ER
997352.HMPREF9419_1267				(PF03051)	ER
997352.HMPREF9419_1074				(PF13306)	ER
997352.HMPREF9419_1292				(PF13306)	ER
997352.HMPREF9419_0082				(PF13306)	ER
997352.HMPREF9419_0715				(PF03051)	ER
997352.HMPREF9419_1584				(PF13306)	ER
997352.HMPREF9419_1812				(PF13306)	ER
997352.HMPREF9419_0866				(PF13306)	ER
997352.HMPREF9419_0863				(PF13306)	ER
997352.HMPREF9419_0158				PF12812	ER
997352.HMPREF9419_0484				PF16269	(mitochondrial)
997352.HMPREF9419_2063				(PF05686)	(ER)
997352.HMPREF9419_1412				(PF13306)	(ER)
997352.HMPREF9419_0622				(PF02971) (PF07837)
997352.HMPREF9419_2308				(PF05034) (PF07476)
997352.HMPREF9419_2409				(PF05970) (PF02689)	not used
997352.HMPREF9419_2196				(PF13306)
997352.HMPREF9419_0900				(PF01715)
997352.HMPREF9419_0358				(PF01715)
997352.HMPREF9419_1663				(PF05693)
997352.HMPREF9419_0672				(PF03630)
997352.HMPREF9419_2256				(PF13306)
997352.HMPREF9419_1857				(PF04991)
997352.HMPREF9419_0500				(PF16314)
997352.HMPREF9419_0692				(PF04991)
997352.HMPREF9419_1932				(PF13306)
997352.HMPREF9419_1346				(PF04991)
997352.HMPREF9419_1799				(PF05970)
997352.HMPREF9419_2311				(PF14330)

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