Effective results for Burkholderia rhizoxinica HKI 454 (eggnog40)

Summary

Number of putative secreted proteins: 63
- Predicted by T4SEpre: 60
- Predicted by EffectiveELD: 5 eukaryotic-like domains, contained in 19 proteins (3 high, 16 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
882378.RBRH_00881			+	(PF13683)	(mitochondrial)
882378.RBRH_01930			+	(PF13683)	(mitochondrial)
882378.RBRH_03171			+	(PF13683)	(mitochondrial)
882378.RBRH_04001			+	(PF13683)	(mitochondrial)
882378.RBRH_02281			+		ER
882378.RBRH_00083			+		(mitochondrial)
882378.RBRH_01571			+		mitochondrial
882378.RBRH_03849			+		ER
882378.RBRH_02136			+		mitochondrial
882378.RBRH_03061			+		ER
882378.RBRH_00205			+		mitochondrial
882378.RBRH_02937			+		ER
882378.RBRH_04070			+		(mitochondrial)
882378.RBRH_03571			+		(mitochondrial)
882378.RBRH_03429				(PF13906)	ER
882378.RBRH_04048			+		mitochondrial
882378.RBRH_01054			+		mitochondrial; (mitochondrial)
882378.RBRH_03215			+		(mitochondrial)
882378.RBRH_03597			+		(mitochondrial)
882378.RBRH_02612			+		mitochondrial
882378.RBRH_01129				(PF13683)	(plastid)
882378.RBRH_02273			+		(mitochondrial)
882378.RBRH_01938			+		(mitochondrial)
882378.RBRH_03717			+		(plastid)
882378.RBRH_01444			+		(mitochondrial)
882378.RBRH_02344			+		(mitochondrial)
882378.RBRH_03769			+		(plastid)
882378.RBRH_03972			+		(ER)
882378.RBRH_00041			+
882378.RBRH_03958			+
882378.RBRH_03726			+
882378.RBRH_03288			+
882378.RBRH_03848			+
882378.RBRH_02223			+
882378.RBRH_03068			+
882378.RBRH_00766			+
882378.RBRH_02929			+
882378.RBRH_03212			+
882378.RBRH_02021				(PF13683)
882378.RBRH_02442			+
882378.RBRH_02198			+
882378.RBRH_04185			+
882378.RBRH_01334			+
882378.RBRH_02910			+
882378.RBRH_02048			+
882378.RBRH_00826			+
882378.RBRH_03407				PF00646
882378.RBRH_00034			+
882378.RBRH_01491			+
882378.RBRH_03413			+
882378.RBRH_03920				PF00646
882378.RBRH_03324			+
882378.RBRH_02642				(PF08242)
882378.RBRH_01506				(PF08242)
882378.RBRH_03169				(PF13683)	not used
882378.RBRH_03166				PF00646
882378.RBRH_02578				(PF08242)
882378.RBRH_02576				(PF08242)
882378.RBRH_02577				(PF08242)
882378.RBRH_02570				(PF03538)
882378.RBRH_00122			+
882378.RBRH_04000				(PF13683)	not used
882378.RBRH_01149				(PF13683)

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 = 0.0 (0/10 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=
==========================================================