Effective results for Francisella sp. TX077308 (eggnog40)

Summary

Number of putative secreted proteins: 58
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 18 eukaryotic-like domains, contained in 58 proteins (25 high, 33 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): (Type VI)

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
573569.F7308_0087				PF03222	mitochondrial
573569.F7308_1840				PF03222	(mitochondrial); (plastid)
573569.F7308_1444				PF05023	ER
573569.F7308_1053				PF00854	ER; (ER)
573569.F7308_1473				(PF07224)	ER
573569.F7308_1869				(PF02931)	ER
573569.F7308_1071				PF00854	ER
573569.F7308_1070				(PF02275)	ER
573569.F7308_1675				PF00854	ER
573569.F7308_1067				(PF04488)	(mitochondrial)
573569.F7308_1334				PF00854	ER; (ER)
573569.F7308_1430				(PF01346)	ER
573569.F7308_1433				(PF04193)	ER
573569.F7308_1432				(PF01346)	ER
573569.F7308_0169				PF03222	(ER); ER
573569.F7308_0019				PF03222	ER
573569.F7308_1563				PF00854	ER
573569.F7308_1376				(PF03767)	ER
573569.F7308_1610				PF03222	ER
573569.F7308_0490				PF03222	ER
573569.F7308_1387				PF00854	ER; (ER)
573569.F7308_1969				(PF07168)	ER
573569.F7308_0967				(PF02275)	ER
573569.F7308_0046				PF00854	ER
573569.F7308_1459				(PF01346)	ER
573569.F7308_1838				PF03222	ER
573569.F7308_1220				(PF03767)	ER
573569.F7308_0067				(PF09419)	(mitochondrial)
573569.F7308_0066				(PF01346)	ER
573569.F7308_1925				(PF00657)	ER
573569.F7308_1458				(PF01346)	ER
573569.F7308_1021				(PF02275)	ER
573569.F7308_0518				(PF00657)	ER
573569.F7308_0886				(PF01000) (PF01193)
573569.F7308_0257				(PF01000) (PF01193)
573569.F7308_0418				(PF04193)	(ER)
573569.F7308_1784				PF00854	(ER)
573569.F7308_1533				PF00854	(ER)
573569.F7308_1839				PF03222	(mitochondrial)
573569.F7308_0720				PF03222	(ER)
573569.F7308_0728				PF03222	(ER)
573569.F7308_1445				PF05023
573569.F7308_1470				(PF02275)
573569.F7308_0656				(PF03767)
573569.F7308_0417				(PF04193)
573569.F7308_0125				(PF04488)
573569.F7308_1798				PF00854
573569.F7308_0755				(PF03331)	not used
573569.F7308_0756				(PF03331)
573569.F7308_0749				(PF03331)
573569.F7308_1631				PF00854
573569.F7308_1752				PF00854
573569.F7308_0390				(PF10013)	not used
573569.F7308_0158				(PF03331)
573569.F7308_1396				(PF05153)
573569.F7308_1717				PF03222
573569.F7308_0449				(PF00657)
573569.F7308_1827				(PF00657)

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: YES (FDR = 7.7 %)
  Estimated copy number = 0.125 (1/8 KEGG proteins)

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