Effective results for Marichromatium purpuratum 984 (eggnog40)

Summary

Number of putative secreted proteins: 50
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 28 eukaryotic-like domains, contained in 50 proteins (3 high, 47 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
765910.MarpuDRAFT_1750				(PF13975)	ER
765910.MarpuDRAFT_2670				(PF13488)	ER
765910.MarpuDRAFT_2665				(PF13975)	mitochondrial
765910.MarpuDRAFT_2667				(PF13975)	ER
765910.MarpuDRAFT_1844				(PF00137)	ER
765910.MarpuDRAFT_2000				PF00014	ER
765910.MarpuDRAFT_1486				(PF02931)	ER
765910.MarpuDRAFT_2581				(PF04930)	(ER)
765910.MarpuDRAFT_2749				(PF00137)	(ER); ER
765910.MarpuDRAFT_0066				PF05735	ER
765910.MarpuDRAFT_0661				(PF03209)	ER
765910.MarpuDRAFT_2751				(PF01813)	mitochondrial
765910.MarpuDRAFT_2750				(PF01496)	(mitochondrial)
765910.MarpuDRAFT_1570				(PF03209)	ER
765910.MarpuDRAFT_0557				(PF13488)	mitochondrial; (mitochondrial)
765910.MarpuDRAFT_2956				(PF04832)	ER
765910.MarpuDRAFT_2149				(PF13488)	ER
765910.MarpuDRAFT_2896				(PF13488)	ER
765910.MarpuDRAFT_2085				(PF04832)	ER
765910.MarpuDRAFT_0609				(PF00016) (PF02788)
765910.MarpuDRAFT_1851				(PF01813)	(plastid)
765910.MarpuDRAFT_1324				(PF00016) (PF02788)
765910.MarpuDRAFT_0680				(PF00016) (PF02788)
765910.MarpuDRAFT_3223				(PF02026)	(mitochondrial)
765910.MarpuDRAFT_0369				(PF07787)	(ER)
765910.MarpuDRAFT_0911				(PF01947)
765910.MarpuDRAFT_0927				(PF00137)
765910.MarpuDRAFT_1250				(PF12483)
765910.MarpuDRAFT_0608				(PF00101)
765910.MarpuDRAFT_0281				(PF13597)
765910.MarpuDRAFT_1645				(PF05706)
765910.MarpuDRAFT_1271				(PF00016)
765910.MarpuDRAFT_2251				(PF03400)
765910.MarpuDRAFT_2746				(PF16886)
765910.MarpuDRAFT_0400				(PF13975)
765910.MarpuDRAFT_0861				(PF03400)
765910.MarpuDRAFT_1843				(PF01496)
765910.MarpuDRAFT_1846				(PF01991)
765910.MarpuDRAFT_1847				(PF16886)
765910.MarpuDRAFT_2135				(PF13597)
765910.MarpuDRAFT_2134				(PF13597)
765910.MarpuDRAFT_3177				(PF13597)	not used
765910.MarpuDRAFT_1325				(PF00101)
765910.MarpuDRAFT_1323				(PF00101)
765910.MarpuDRAFT_2117				(PF00026)
765910.MarpuDRAFT_2115				(PF08357)
765910.MarpuDRAFT_2377				(PF03400)
765910.MarpuDRAFT_2374				PF08538
765910.MarpuDRAFT_2955				(PF10504)
765910.MarpuDRAFT_0562				(PF14701)

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