Effective results for Pseudoalteromonas atlantica T6c (eggnog40)

Summary

Number of putative secreted proteins: 52
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 25 eukaryotic-like domains, contained in 52 proteins (3 high, 49 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
342610.Patl_0338				(PF02112)	ER
342610.Patl_1820				(PF14240)	(mitochondrial)
342610.Patl_1120				(PF14330)	(mitochondrial)
342610.Patl_0182				(PF00431)	ER
342610.Patl_2033				(PF13023)	(mitochondrial)
342610.Patl_0419				(PF13431)	ER
342610.Patl_1116				PF05577	ER
342610.Patl_3659				(PF14592)	ER
342610.Patl_1099				(PF00685)	mitochondrial; (mitochondrial)
342610.Patl_4151				(PF02460)	(ER)
342610.Patl_3224				(PF00685)	(ER)
342610.Patl_3640				(PF14592)	ER
342610.Patl_3817				(PF04820)	(mitochondrial)
342610.Patl_1526				(PF14240)	ER
342610.Patl_0126				(PF03644)	ER
342610.Patl_1338				PF04733	ER
342610.Patl_3128				(PF13431)	ER
342610.Patl_0109				(PF08662)	ER
342610.Patl_0823				(PF16757)	ER
342610.Patl_0831				(PF16757)	ER
342610.Patl_2032				(PF13023)	(ER)
342610.Patl_0783				(PF14240)	(ER)
342610.Patl_4140				(PF01679)	ER; not used
342610.Patl_2992				(PF13431)	(ER)
342610.Patl_0450				(PF01679)	ER; not used
342610.Patl_1939				(PF04820)
342610.Patl_1964				(PF04820)
342610.Patl_2907				(PF14240)
342610.Patl_4184				(PF11017)
342610.Patl_3325				(PF13023)
342610.Patl_3685				(PF04820)
342610.Patl_2784				(PF13875)
342610.Patl_3223				(PF00685)
342610.Patl_2848				(PF11017)
342610.Patl_0076				(PF10576)
342610.Patl_4265				(PF06119)
342610.Patl_3276				(PF04820)
342610.Patl_0802				(PF04820)
342610.Patl_0803				(PF04820)
342610.Patl_0807				(PF04820)
342610.Patl_1501				(PF02010)
342610.Patl_1180				(PF00685)
342610.Patl_3045				(PF09811)
342610.Patl_3277				(PF04820)
342610.Patl_3457				PF01150
342610.Patl_2546				(PF04820)
342610.Patl_2974				(PF10576)
342610.Patl_2971				(PF10576)
342610.Patl_2979				(PF10576)	not used
342610.Patl_0150				(PF10013)	not used
342610.Patl_1958				(PF08695)
342610.Patl_4289				(PF04820)

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