Effective results for Silicibacter sp. TrichCH4B (eggnog40)

Summary

Number of putative secreted proteins: 39
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 15 eukaryotic-like domains, contained in 39 proteins (1 high, 38 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): Type VI

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
644076.SCH4B_3758				(PF02494)	(ER)
644076.SCH4B_3379				(PF13704)	mitochondrial; plastid
644076.SCH4B_1027				(PF11977)	ER
644076.SCH4B_2000				(PF13704)	(mitochondrial)
644076.SCH4B_1539				(PF13468)	ER
644076.SCH4B_3843				(PF09994)	mitochondrial
644076.SCH4B_4417				(PF13683)	(mitochondrial)
644076.SCH4B_0117				(PF13683)	(mitochondrial)
644076.SCH4B_0050				(PF13683)	(mitochondrial)
644076.SCH4B_1999				(PF13704)	(ER)
644076.SCH4B_0170				(PF13683)	(mitochondrial)
644076.SCH4B_0434				(PF13704)	(ER)
644076.SCH4B_3640				(PF13683)
644076.SCH4B_0269				(PF07700)
644076.SCH4B_1890				(PF13468)
644076.SCH4B_2282				(PF14532)
644076.SCH4B_0109				(PF13683)
644076.SCH4B_2406				(PF02475)
644076.SCH4B_4343				(PF09994)
644076.SCH4B_3762				(PF13683)
644076.SCH4B_3768				(PF09994)
644076.SCH4B_1508				(PF07700)
644076.SCH4B_1197				(PF08975)
644076.SCH4B_4132				(PF16983)
644076.SCH4B_2151				(PF06119)
644076.SCH4B_1011				(PF13704)
644076.SCH4B_1958				(PF14532)
644076.SCH4B_1954				PF11781
644076.SCH4B_2040				(PF02494)
644076.SCH4B_1965				(PF13704)
644076.SCH4B_2470				(PF13468)
644076.SCH4B_1607				(PF09458)
644076.SCH4B_2656				(PF02485)
644076.SCH4B_2002				(PF13704)
644076.SCH4B_1138				(PF14532)
644076.SCH4B_0084				(PF13683)	not used
644076.SCH4B_3381				(PF02485)
644076.SCH4B_3380				(PF13704)
644076.SCH4B_3653				(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

• 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: YES (FDR = 7.7 %)
  Estimated copy number = 1.125 (9/8 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=
==========================================================