Effective results for Francisella cf. tularensis subsp. novicida 3523 (eggnog40)

Summary

Number of putative secreted proteins: 38
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 15 eukaryotic-like domains, contained in 38 proteins (0 high, 38 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
676032.FN3523_0368				(PF04193)	mitochondrial
676032.FN3523_1153				(PF00854)	ER
676032.FN3523_0160				(PF03222)	ER
676032.FN3523_0761				(PF03222)	ER
676032.FN3523_0901				(PF00854)	ER; (ER)
676032.FN3523_1771				(PF13507)	mitochondrial; (mitochondrial)
676032.FN3523_1370				(PF02275)	ER; (ER)
676032.FN3523_0118				(PF05686)	mitochondrial
676032.FN3523_1342				(PF00854)	ER
676032.FN3523_1575				(PF03222)	ER
676032.FN3523_1320				(PF02275)	ER
676032.FN3523_0018				(PF03222)	ER
676032.FN3523_1839				(PF07168)	ER
676032.FN3523_1783				(PF03222)	ER
676032.FN3523_0079				(PF03222)	mitochondrial
676032.FN3523_1319				(PF00854)	ER
676032.FN3523_1250				(PF00854)	ER
676032.FN3523_0529				(PF00854)	ER
676032.FN3523_0853				(PF04193)	ER
676032.FN3523_1583				(PF03222)	ER; (ER)
676032.FN3523_0431				(PF02931)	ER
676032.FN3523_1139				(PF00854)	(ER)
676032.FN3523_1710				(PF03318)	(ER)
676032.FN3523_0250				(PF01000) (PF01193)
676032.FN3523_1325				(PF04488)	(ER)
676032.FN3523_0674				(PF00854)	(ER)
676032.FN3523_1470				(PF01000) (PF01193)
676032.FN3523_1269				(PF00854)
676032.FN3523_0569				(PF03222)
676032.FN3523_1768				(PF13507)
676032.FN3523_1769				(PF13507)
676032.FN3523_0340				(PF10013)	not used
676032.FN3523_0023				(PF00328)
676032.FN3523_0742				(PF04488)
676032.FN3523_1111				(PF02275)
676032.FN3523_0892				(PF05153)
676032.FN3523_0953				(PF00854)
676032.FN3523_1059				(PF00328)

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