Effective results for Rubrivivax benzoatilyticus JA2 = ATCC BAA-35 (eggnog40)

Summary

Number of putative secreted proteins: 23
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 9 eukaryotic-like domains, contained in 23 proteins (0 high, 23 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
987059.RBXJA2T_02722				(PF16036)	ER
987059.RBXJA2T_09537				(PF03209)	(ER)
987059.RBXJA2T_03116				(PF16036)	ER
987059.RBXJA2T_09592				(PF03209)	ER
987059.RBXJA2T_03566				(PF02333)	ER
987059.RBXJA2T_12312				(PF16036)	ER
987059.RBXJA2T_01275				(PF01515)	(plastid)
987059.RBXJA2T_03823				(PF10013)	not used
987059.RBXJA2T_18473				(PF01515)
987059.RBXJA2T_02882				(PF01515)
987059.RBXJA2T_04938				(PF12513)
987059.RBXJA2T_18703				(PF00101)
987059.RBXJA2T_08420				(PF00856)
987059.RBXJA2T_10581				(PF01515)
987059.RBXJA2T_07603				(PF00856)
987059.RBXJA2T_06075				(PF02333)	not used
987059.RBXJA2T_06255				(PF01515)
987059.RBXJA2T_13954				(PF01515)
987059.RBXJA2T_00390				(PF01515)
987059.RBXJA2T_01365				(PF05706)
987059.RBXJA2T_00360				(PF00101)
987059.RBXJA2T_19456				(PF03209)
987059.RBXJA2T_02632				(PF00856)

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