Effective results for Candidatus Midichloria mitochondrii IricVA (eggnog40)

Summary

Number of putative secreted proteins: 35
- Predicted by T4SEpre: 40
- Predicted by EffectiveELD: 3 eukaryotic-like domains, contained in 4 proteins (2 high, 2 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
696127.midi_00646			+		ER
696127.midi_00549			+		mitochondrial
696127.midi_00398			+		(mitochondrial)
696127.midi_00084				PF02326	ER
696127.midi_00338				(PF03219)	ER
696127.midi_01118			+		(mitochondrial)
696127.midi_00183				(PF03219)	ER; (ER)
696127.midi_00677			+		ER
696127.midi_00211			+		ER
696127.midi_00723			+		(mitochondrial)
696127.midi_00486			+		(plastid)
696127.midi_00336			+		(mitochondrial)
696127.midi_00637			+
696127.midi_00391			+
696127.midi_01121			+
696127.midi_00937			+
696127.midi_00825			+
696127.midi_00371			+
696127.midi_00376				PF09612
696127.midi_01153			+
696127.midi_00159			+
696127.midi_01179			+
696127.midi_00788			+
696127.midi_00330			+
696127.midi_00009			+
696127.midi_00226			+
696127.midi_00455			+
696127.midi_00736			+
696127.midi_01215			+
696127.midi_00918			+
696127.midi_01039			+
696127.midi_00536			+
696127.midi_00194			+
696127.midi_00417			+
696127.midi_00746			+

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 = 1.0 (10/10 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=
==========================================================