Effective results for Croceibacter atlanticus HTCC2559 (eggnog40)

Summary

Number of putative secreted proteins: 38
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 19 eukaryotic-like domains, contained in 38 proteins (1 high, 37 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
216432.CA2559_03565				(PF07504) (PF00629)	ER
216432.CA2559_02230				(PF02128) (PF07504)	ER
216432.CA2559_04145				(PF02128) (PF07504)	ER
216432.CA2559_04140				(PF02128) (PF07504)	ER
216432.CA2559_05520				(PF13582)	ER
216432.CA2559_09553				(PF10988)	ER
216432.CA2559_11513				(PF08787)	ER
216432.CA2559_11483				(PF08787)	ER
216432.CA2559_09051				(PF07504)	ER
216432.CA2559_07295				(PF02709)	(mitochondrial); mitochondrial
216432.CA2559_03655				(PF10988)	ER
216432.CA2559_11208				(PF10988)	ER
216432.CA2559_02895				(PF03321)	mitochondrial
216432.CA2559_00625				(PF00629)	ER
216432.CA2559_07565				(PF07504)	ER
216432.CA2559_01395				(PF04784)	ER
216432.CA2559_06025				(PF10988)	ER
216432.CA2559_05000				(PF04784)	ER
216432.CA2559_09483				PF09229	(mitochondrial)
216432.CA2559_06035				(PF10988)	ER
216432.CA2559_09548				(PF10988)	ER
216432.CA2559_01000				(PF01094)	ER
216432.CA2559_11528				(PF08787)	ER
216432.CA2559_05515				(PF01679)	ER; not used
216432.CA2559_13168				(PF09445)	(ER)
216432.CA2559_02650				(PF01679)	ER; not used
216432.CA2559_07811				(PF10013)	not used
216432.CA2559_00225				(PF09537)
216432.CA2559_12233				(PF07766)
216432.CA2559_06135				(PF02709)
216432.CA2559_04630				(PF09537)
216432.CA2559_12318				(PF03321)
216432.CA2559_00655				(PF03321)
216432.CA2559_02865				(PF02709)
216432.CA2559_01010				(PF03901)
216432.CA2559_01235				(PF12899)
216432.CA2559_07210				(PF09537)
216432.CA2559_12603				(PF10504)

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