Effective results for Brevundimonas sp. BAL3 (eggnog40)

Summary

Number of putative secreted proteins: 55
- Predicted by T4SEpre: 44
- Predicted by EffectiveELD: 7 eukaryotic-like domains, contained in 15 proteins (0 high, 15 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
391600.BBAL3_1560			+		ER
391600.BBAL3_3451				(PF08856)	(ER); (plastid)
391600.BBAL3_751			+		mitochondrial; (mitochondrial)
391600.BBAL3_2526				(PF05118)	mitochondrial; (mitochondrial)
391600.BBAL3_2778				(PF13871) (PF13872)	(plastid)
391600.BBAL3_3426			+		ER
391600.BBAL3_3216			+		ER
391600.BBAL3_559			+		ER
391600.BBAL3_2003			+		ER
391600.BBAL3_2001				(PF10013)	(mitochondrial); mitochondrial
391600.BBAL3_1469			+		ER
391600.BBAL3_2937			+		ER
391600.BBAL3_895			+		ER; (ER)
391600.BBAL3_899			+		mitochondrial
391600.BBAL3_474			+		ER; (ER)
391600.BBAL3_1504				(PF08856)	(ER); (plastid)
391600.BBAL3_313			+		ER
391600.BBAL3_119			+		(mitochondrial)
391600.BBAL3_1969				(PF13871) (PF13872)
391600.BBAL3_1051			+	(PF00342)
391600.BBAL3_999				(PF05118)	(ER)
391600.BBAL3_1796				(PF13871) (PF13872)
391600.BBAL3_2849			+
391600.BBAL3_2189				(PF00342)
391600.BBAL3_1636			+
391600.BBAL3_1366			+
391600.BBAL3_3119			+
391600.BBAL3_3112			+
391600.BBAL3_1629			+
391600.BBAL3_3449			+
391600.BBAL3_3050				(PF01786)
391600.BBAL3_2521			+
391600.BBAL3_1963			+
391600.BBAL3_922			+
391600.BBAL3_2414			+
391600.BBAL3_3146			+
391600.BBAL3_2163			+
391600.BBAL3_2289			+
391600.BBAL3_719			+
391600.BBAL3_1103				(PF01786)
391600.BBAL3_1105				(PF05118)
391600.BBAL3_1459			+
391600.BBAL3_3177				(PF00342)
391600.BBAL3_2644			+
391600.BBAL3_261			+
391600.BBAL3_2137			+
391600.BBAL3_3030			+
391600.BBAL3_1524			+
391600.BBAL3_3253			+
391600.BBAL3_1892			+
391600.BBAL3_513			+
391600.BBAL3_1533				(PF05118)
391600.BBAL3_2368			+
391600.BBAL3_652			+
391600.BBAL3_1416			+

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 = 0.6 (6/10 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=
==========================================================