Effective results for Prevotella bergensis DSM 17361 (eggnog40)

Summary

Number of putative secreted proteins: 46
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 21 eukaryotic-like domains, contained in 46 proteins (5 high, 41 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
585502.HMPREF0645_1634				PF05089 PF12972 PF12971	ER
585502.HMPREF0645_1471				PF05089 PF12972 PF12971	ER
585502.HMPREF0645_1470				PF05089 PF12972 PF12971	ER
585502.HMPREF0645_1734				(PF03648) (PF15979)	ER
585502.HMPREF0645_0343				(PF03051)	ER
585502.HMPREF0645_0383				(PF13905)	ER
585502.HMPREF0645_1889				(PF16355)	ER
585502.HMPREF0645_1572				(PF01095)	ER
585502.HMPREF0645_0987				(PF00295)	ER
585502.HMPREF0645_1297				(PF03051)	ER
585502.HMPREF0645_1633				(PF13905)	ER
585502.HMPREF0645_1632				(PF13905)	ER
585502.HMPREF0645_1569				(PF01095)	ER
585502.HMPREF0645_1821				(PF03051)	ER
585502.HMPREF0645_2023				(PF03415)	ER
585502.HMPREF0645_1341				(PF00295)	ER
585502.HMPREF0645_2473				(PF16355)	ER
585502.HMPREF0645_0684				(PF15979)	ER
585502.HMPREF0645_0532				(PF13905)	ER
585502.HMPREF0645_2785				(PF03415)	ER
585502.HMPREF0645_1069				(PF00295)	ER
585502.HMPREF0645_1057				(PF16889)	ER
585502.HMPREF0645_1059				(PF16332)	ER
585502.HMPREF0645_0871				(PF16355)	(mitochondrial)
585502.HMPREF0645_2438				(PF13905)	ER
585502.HMPREF0645_1083				(PF13905)	ER
585502.HMPREF0645_1712				(PF03648)	ER
585502.HMPREF0645_2175				(PF16355)	ER
585502.HMPREF0645_2172				(PF00295)	ER
585502.HMPREF0645_0045				(PF01095)	ER
585502.HMPREF0645_2279				(PF16011)	(mitochondrial)
585502.HMPREF0645_0926				(PF05970) PF02689
585502.HMPREF0645_1532				(PF05970) PF02689
585502.HMPREF0645_2774				(PF13155)
585502.HMPREF0645_2554				(PF13155)
585502.HMPREF0645_1544				(PF13155)
585502.HMPREF0645_0776				(PF00295)
585502.HMPREF0645_1865				(PF03630)
585502.HMPREF0645_1056				(PF16889)	not used
585502.HMPREF0645_0928				(PF01715)
585502.HMPREF0645_2162				(PF16314)
585502.HMPREF0645_0111				(PF05693)
585502.HMPREF0645_2753				(PF13155)
585502.HMPREF0645_0129				(PF01715)
585502.HMPREF0645_0432				(PF13155)
585502.HMPREF0645_1098				(PF16355)

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