Effective results for Pseudomonas stutzeri A1501 (eggnog40)

Summary

Number of putative secreted proteins: 37
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 14 eukaryotic-like domains, contained in 37 proteins (1 high, 36 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
379731.PST_0728				(PF00639)	(mitochondrial)
379731.PST_2203				(PF00639)	(mitochondrial)
379731.PST_3527				(PF02239)	ER
379731.PST_0916				(PF06293)	(mitochondrial); mitochondrial
379731.PST_3532				(PF02239)	ER
379731.PST_3538				(PF02239)	ER
379731.PST_3792				(PF08732)	(mitochondrial)
379731.PST_1445				(PF06884)	ER
379731.PST_1430				(PF09834)	ER
379731.PST_1606				(PF12513)	(mitochondrial)
379731.PST_3135				(PF12483)	ER
379731.PST_2283				(PF02239)	ER
379731.PST_2133				(PF09834)	(plastid)
379731.PST_3429				(PF13384)
379731.PST_1595				(PF02482)
379731.PST_0301				(PF02482)
379731.PST_3692				(PF00639)
379731.PST_2878				(PF13384)
379731.PST_3831				(PF06293)
379731.PST_3829				(PF06293)
379731.PST_0900				(PF00639)
379731.PST_0593				PF07984
379731.PST_3104				(PF13384)
379731.PST_0582				(PF08482)
379731.PST_0583				(PF08482)
379731.PST_1357				(PF00639)
379731.PST_0552				(PF13384)
379731.PST_1561				(PF02482)
379731.PST_2413				(PF02460)
379731.PST_0700				(PF13384)
379731.PST_1030				(PF02482)
379731.PST_3843				(PF06293)
379731.PST_3846				(PF06293)
379731.PST_3844				(PF06293)
379731.PST_3845				(PF06293)
379731.PST_3712				(PF08482)
379731.PST_1806				(PF16485)

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 = 1.25 (10/8 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=
==========================================================