Effective results for Helicobacter mustelae 12198 (eggnog40)

Summary

Number of putative secreted proteins: 60
- Predicted by T4SEpre: 74
- Predicted by EffectiveELD: 2 eukaryotic-like domains, contained in 2 proteins (1 high, 1 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), (Type VI)

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
679897.HMU10390			+		mitochondrial; (mitochondrial)
679897.HMU10650			+		ER
679897.HMU07540			+		mitochondrial
679897.HMU06040			+		(mitochondrial); mitochondrial
679897.HMU09640			+		mitochondrial; (mitochondrial)
679897.HMU04770			+		(ER); ER
679897.HMU11510			+		ER
679897.HMU02920			+		ER
679897.HMU09100			+		ER
679897.HMU12190			+		ER
679897.HMU10590			+		(mitochondrial); (plastid)
679897.HMU07750			+		(ER); ER
679897.HMU13630			+		(ER)
679897.HMU08980			+		ER
679897.HMU11560			+		ER
679897.HMU03940			+		ER
679897.HMU02030			+		ER
679897.HMU02820			+		ER
679897.HMU09370			+		ER
679897.HMU02240			+		ER; mitochondrial
679897.HMU12700			+		ER
679897.HMU11810			+		(mitochondrial)
679897.HMU06390			+		(mitochondrial)
679897.HMU12020			+		(mitochondrial)
679897.HMU11870			+		(mitochondrial)
679897.HMU02410			+
679897.HMU05310				(PF05686)
679897.HMU03890			+
679897.HMU10900			+
679897.HMU12640			+
679897.HMU12080			+
679897.HMU06940			+
679897.HMU05150			+
679897.HMU07770			+
679897.HMU08170			+
679897.HMU12050				PF03414
679897.HMU10110			+
679897.HMU00030			+
679897.HMU07070			+
679897.HMU11420			+
679897.HMU02360			+
679897.HMU09030			+
679897.HMU04210			+
679897.HMU14240			+
679897.HMU10540			+
679897.HMU09620			+
679897.HMU09380			+
679897.HMU04290			+
679897.HMU09950			+
679897.HMU06830			+
679897.HMU01180			+
679897.HMU10620			+
679897.HMU03720			+
679897.HMU14170			+
679897.HMU00130			+
679897.HMU02460			+
679897.HMU06340			+
679897.HMU06570			+
679897.HMU11020			+
679897.HMU14120			+

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: YES (FDR = 7.7 %)
  Estimated copy number = 0.375 (3/8 KEGG proteins)

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