Effective results for Capnocytophaga gingivalis ATCC 33624 (eggnog40)

Summary

Number of putative secreted proteins: 43
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 12 eukaryotic-like domains, contained in 43 proteins (1 high, 42 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
553178.CAPGI0001_0804				(PF01431) (PF05649)	ER
553178.CAPGI0001_1219				(PF01431) (PF05649)	ER
553178.CAPGI0001_1273				(PF01431) (PF05649)	ER
553178.CAPGI0001_1276				(PF01431) (PF05649)	(ER)
553178.CAPGI0001_0470				PF00191	ER
553178.CAPGI0001_2412				(PF13306)	ER
553178.CAPGI0001_2411				(PF13306)	ER
553178.CAPGI0001_2388				(PF13306)	ER
553178.CAPGI0001_2409				(PF13583)	ER
553178.CAPGI0001_0939				(PF13306)	ER
553178.CAPGI0001_0228				(PF03083)	(ER)
553178.CAPGI0001_0897				(PF13306)	ER
553178.CAPGI0001_1144				(PF13306)	ER
553178.CAPGI0001_1122				(PF14771)	ER
553178.CAPGI0001_0056				(PF13306)	ER
553178.CAPGI0001_2574				(PF13306)	ER
553178.CAPGI0001_2604				(PF13583)	ER
553178.CAPGI0001_2602				(PF13583)	ER
553178.CAPGI0001_2601				(PF13583)	(ER); (plastid)
553178.CAPGI0001_2293				(PF13306)	ER
553178.CAPGI0001_2289				(PF03162)	ER
553178.CAPGI0001_0715				(PF09346)
553178.CAPGI0001_0735				(PF09346)
553178.CAPGI0001_0733				(PF09346)
553178.CAPGI0001_2410				(PF13306)
553178.CAPGI0001_0938				(PF13306)
553178.CAPGI0001_2462				(PF09346)
553178.CAPGI0001_0772				(PF04326)
553178.CAPGI0001_2458				(PF09346)
553178.CAPGI0001_2228				(PF09234)
553178.CAPGI0001_2318				(PF09234)	not used
553178.CAPGI0001_2319				(PF09234)
553178.CAPGI0001_1681				(PF04326)
553178.CAPGI0001_1680				(PF09346)
553178.CAPGI0001_0624				(PF09346)
553178.CAPGI0001_0052				(PF09234)	not used
553178.CAPGI0001_0611				(PF03083)
553178.CAPGI0001_1678				(PF09346)
553178.CAPGI0001_1062				(PF09346)
553178.CAPGI0001_0049				(PF09234)
553178.CAPGI0001_1109				(PF04326)
553178.CAPGI0001_1077				(PF05693)
553178.CAPGI0001_2357				(PF04326)

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