Effective results for Thermovirga lienii DSM 17291 (eggnog40)

Summary

Number of putative secreted proteins: 76
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 22 eukaryotic-like domains, contained in 76 proteins (8 high, 68 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
580340.Tlie_0491				(PF16653)	(ER)
580340.Tlie_0022				(PF16653)	ER
580340.Tlie_0962				(PF00137)	ER
580340.Tlie_0968				(PF01813)	mitochondrial; (mitochondrial)
580340.Tlie_1496				(PF01496)	ER
580340.Tlie_1495				(PF00137)	ER
580340.Tlie_1492				(PF02874) (PF16886)	(mitochondrial)
580340.Tlie_1499				(PF01813)	mitochondrial
580340.Tlie_0157				(PF16653)	(mitochondrial)
580340.Tlie_0908				(PF00137)	ER
580340.Tlie_0910				PF01992	(mitochondrial)
580340.Tlie_0966				(PF02874) (PF16886)
580340.Tlie_0373				(PF02971) (PF07837)
580340.Tlie_0576				(PF14336)	(mitochondrial)
580340.Tlie_1711				(PF01210) (PF02317)
580340.Tlie_1537				(PF14697)	(plastid)
580340.Tlie_1199				(PF14697) (PF13237)
580340.Tlie_0907				(PF01496)	(ER)
580340.Tlie_1506				(PF01210) (PF02317)
580340.Tlie_0914				(PF01813)	(mitochondrial)
580340.Tlie_0912				(PF02874) (PF16886)
580340.Tlie_1337				(PF00872)
580340.Tlie_0340				(PF00872)
580340.Tlie_1214				(PF00872)
580340.Tlie_1786				(PF00872)
580340.Tlie_0303				(PF13518)
580340.Tlie_0788				(PF13518)
580340.Tlie_0468				(PF13518)
580340.Tlie_1221				(PF00872)
580340.Tlie_1353				(PF13518)
580340.Tlie_0256				(PF16653)
580340.Tlie_0242				(PF00872)
580340.Tlie_1115				(PF14697)
580340.Tlie_0960				PF03179
580340.Tlie_0961				(PF01496)
580340.Tlie_0963				PF01991
580340.Tlie_0964				PF01992
580340.Tlie_0965				(PF01990)
580340.Tlie_0967				(PF02874)
580340.Tlie_0180				(PF13237)
580340.Tlie_0297				(PF14697)
580340.Tlie_1626				(PF13237)
580340.Tlie_0290				(PF00872)
580340.Tlie_0353				(PF14792)
580340.Tlie_0359				(PF13237)	not used
580340.Tlie_1392				(PF00872)
580340.Tlie_1830				(PF00872)
580340.Tlie_0361				(PF01210)
580340.Tlie_0707				(PF13518)
580340.Tlie_1380				(PF00872)
580340.Tlie_1497				PF01992
580340.Tlie_1494				(PF01990)
580340.Tlie_1493				PF01991
580340.Tlie_1491				(PF02874)
580340.Tlie_0952				(PF13237)
580340.Tlie_0379				(PF00755)
580340.Tlie_0719				(PF00872)
580340.Tlie_1538				(PF14697)
580340.Tlie_0009				(PF00872)
580340.Tlie_1532				(PF00872)
580340.Tlie_1857				(PF00872)
580340.Tlie_1036				(PF00872)
580340.Tlie_1453				PF04414
580340.Tlie_0939				(PF13518)
580340.Tlie_1511				(PF00872)
580340.Tlie_0497				(PF00872)
580340.Tlie_0909				PF01991
580340.Tlie_0129				(PF13518)
580340.Tlie_0234				(PF00872)
580340.Tlie_1504				(PF02317)
580340.Tlie_1475				(PF00872)
580340.Tlie_0913				(PF02874)
580340.Tlie_0217				(PF00872)
580340.Tlie_0077				(PF02874)
580340.Tlie_1412				(PF00872)
580340.Tlie_1248				(PF14697)

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