Effective results for Treponema brennaborense DSM 12168 (eggnog40)

Summary

Number of putative secreted proteins: 38
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 23 eukaryotic-like domains, contained in 38 proteins (7 high, 31 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
906968.Trebr_1552				(PF02278) (PF08124) (PF02884)	ER
906968.Trebr_1554				(PF02278) (PF08124) (PF02884)	ER
906968.Trebr_1556				(PF02278) (PF08124)	(mitochondrial)
906968.Trebr_0682				(PF16561)	ER
906968.Trebr_0184				(PF03659)	ER
906968.Trebr_0553				PF03415	ER
906968.Trebr_1162				(PF01715)	ER; (ER)
906968.Trebr_0368				(PF11070)	ER
906968.Trebr_0296				PF03151	ER
906968.Trebr_2407				PF03415	ER
906968.Trebr_1324				PF03415	ER
906968.Trebr_0819				(PF14307)	(ER)
906968.Trebr_1135				PF03727 PF00349
906968.Trebr_2315				(PF02906)	(mitochondrial)
906968.Trebr_1812				(PF04432)
906968.Trebr_1075				(PF06418)
906968.Trebr_1704				PF03179
906968.Trebr_1702				(PF01496)
906968.Trebr_1709				(PF02906)
906968.Trebr_0439				(PF14307)
906968.Trebr_2025				(PF16011)
906968.Trebr_0777				(PF02906)
906968.Trebr_1188				(PF01496)
906968.Trebr_1185				(PF16886)
906968.Trebr_1187				(PF01813)
906968.Trebr_0349				(PF16561)
906968.Trebr_2055				(PF04488)
906968.Trebr_0334				(PF02906)
906968.Trebr_2312				(PF02906)
906968.Trebr_1696				(PF01813)
906968.Trebr_1698				(PF16886)
906968.Trebr_0745				(PF04488)
906968.Trebr_0742				PF11735
906968.Trebr_0258				(PF02906)
906968.Trebr_0644				(PF16314)
906968.Trebr_1091				(PF01715)
906968.Trebr_1657				(PF04432)
906968.Trebr_0875				(PF06418)

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