Effective results for Pseudoalteromonas tunicata D2 (eggnog40)

Summary

Number of putative secreted proteins: 55
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 18 eukaryotic-like domains, contained in 55 proteins (5 high, 50 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
87626.PTD2_03361				(PF16187)	ER
87626.PTD2_03176				(PF00883)	ER; (mitochondrial)
87626.PTD2_18245				(PF09317)	ER
87626.PTD2_07289				(PF03924)	mitochondrial
87626.PTD2_05995				(PF03924)	(ER); ER
87626.PTD2_13144				(PF08443)	(mitochondrial)
87626.PTD2_00010				(PF13718)	mitochondrial
87626.PTD2_06090				(PF16187)	(ER)
87626.PTD2_07424				(PF00728)	ER
87626.PTD2_01386				(PF00728)	ER
87626.PTD2_21557				(PF00728)	ER
87626.PTD2_02156				(PF04450)	ER
87626.PTD2_09494				(PF03924)	ER
87626.PTD2_09652				(PF08662)	ER
87626.PTD2_20337				(PF03924)	(ER); ER
87626.PTD2_21212				(PF00078)	(mitochondrial)
87626.PTD2_01361				(PF00728)	ER
87626.PTD2_22672				(PF09317)	ER
87626.PTD2_01306				(PF03924)	ER
87626.PTD2_21002				(PF00728)	ER
87626.PTD2_01796				PF04831	ER
87626.PTD2_01951				(PF00078)	(mitochondrial)
87626.PTD2_00422				PF02010	(ER)
87626.PTD2_04016				(PF08443)	(ER)
87626.PTD2_21632				(PF06315)	(plastid)
87626.PTD2_13759				(PF08443)	(ER)
87626.PTD2_12834				(PF10354)
87626.PTD2_11719				(PF16187)
87626.PTD2_01431				(PF00078)
87626.PTD2_02811				(PF09317)
87626.PTD2_03211				(PF12576)
87626.PTD2_06249				PF00238
87626.PTD2_00851				(PF00078)
87626.PTD2_00911				(PF00883)
87626.PTD2_10999				(PF00078)
87626.PTD2_04021				(PF08443)
87626.PTD2_11004				(PF00078)
87626.PTD2_12439				(PF10013)	not used
87626.PTD2_08804				(PF00883)
87626.PTD2_22457				(PF08459)
87626.PTD2_21552				(PF00728)
87626.PTD2_22282				(PF00078)
87626.PTD2_22725				(PF08459)	not used
87626.PTD2_03241				PF02010
87626.PTD2_12629				(PF00883)
87626.PTD2_04671				(PF00078)
87626.PTD2_15222				(PF08443)
87626.PTD2_21217				(PF00078)
87626.PTD2_09743				PF00238
87626.PTD2_07839				(PF00078)
87626.PTD2_17037				(PF08443)
87626.PTD2_16556				(PF00078)
87626.PTD2_09569				(PF13718)
87626.PTD2_21537				(PF06315)
87626.PTD2_13289				(PF00883)

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