Effective results for Treponema vincentii ATCC 35580 (eggnog40)

Summary

Number of putative secreted proteins: 35
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 16 eukaryotic-like domains, contained in 35 proteins (5 high, 30 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
596324.TREVI0001_0349				(PF13176)	ER
596324.TREVI0001_0353				(PF13173)	mitochondrial
596324.TREVI0001_1392				(PF03266)	(mitochondrial)
596324.TREVI0001_0432				(PF01715)	(mitochondrial)
596324.TREVI0001_2257				(PF13176)	ER
596324.TREVI0001_0412				(PF13176)	mitochondrial
596324.TREVI0001_2038				PF02544	ER
596324.TREVI0001_0873				(PF13173)	(mitochondrial)
596324.TREVI0001_0677				PF02544	ER
596324.TREVI0001_1764				(PF12733)	ER
596324.TREVI0001_0556				(PF13176)	ER
596324.TREVI0001_1751				(PF12733)	ER
596324.TREVI0001_1987				(PF12733)	ER
596324.TREVI0001_0777				PF03727 PF00349
596324.TREVI0001_2069				(PF13176)	(mitochondrial)
596324.TREVI0001_2244				(PF01715)	(plastid)
596324.TREVI0001_1917				(PF13151)	(mitochondrial)
596324.TREVI0001_0850				(PF11070)	(ER)
596324.TREVI0001_1206				(PF16314)	(plastid)
596324.TREVI0001_1561				(PF13176)
596324.TREVI0001_2518				(PF13176)
596324.TREVI0001_0594				(PF13173)
596324.TREVI0001_1507				PF04548
596324.TREVI0001_0433				(PF01715)
596324.TREVI0001_2015				PF04733
596324.TREVI0001_1240				(PF07998)
596324.TREVI0001_2254				(PF07892)
596324.TREVI0001_1107				(PF06245)
596324.TREVI0001_0245				(PF13173)
596324.TREVI0001_1042				(PF07892)
596324.TREVI0001_2162				(PF06245)
596324.TREVI0001_2165				(PF13151)
596324.TREVI0001_0843				(PF13173)
596324.TREVI0001_2408				(PF13173)
596324.TREVI0001_2321				(PF13173)

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