Effective results for Roseovarius nubinhibens ISM (eggnog40)

Summary

Number of putative secreted proteins: 36
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 11 eukaryotic-like domains, contained in 36 proteins (15 high, 21 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
89187.ISM_14570				PF16350 (PF08669) (PF01571)	(ER)
89187.ISM_10266				PF16350 (PF08669) (PF01571)	ER
89187.ISM_10261				PF16350 (PF08669) (PF01571)	ER
89187.ISM_03660				PF16350 (PF08669) (PF01571)	ER
89187.ISM_14465				PF16350 (PF08669) (PF01571)	(ER)
89187.ISM_02920				PF16350 (PF08669) (PF01571)
89187.ISM_03220				PF04733	ER
89187.ISM_14575				PF16350 (PF08669) (PF01571)
89187.ISM_02725				PF16350 (PF08669) (PF01571)
89187.ISM_16865				(PF12411)	(ER)
89187.ISM_09150				PF16350 (PF08669) (PF01571)
89187.ISM_04390				PF16350 (PF08669) (PF01571)
89187.ISM_14100				PF16350 (PF08669) (PF01571)
89187.ISM_02705				PF16350 (PF08669) (PF01571)
89187.ISM_08450				PF10712	(ER)
89187.ISM_05565				(PF01571) (PF08669)	(mitochondrial)
89187.ISM_10571				PF16350 (PF08669) (PF01571)
89187.ISM_16590				(PF01571) (PF08669)
89187.ISM_09346				(PF01571) (PF08669)
89187.ISM_00170				(PF01571) (PF08669)
89187.ISM_15390				(PF01571) (PF08669)
89187.ISM_05735				(PF01571) (PF08669)
89187.ISM_08170				(PF01571) (PF08669)
89187.ISM_12990				(PF01571) (PF08669)
89187.ISM_15575				(PF00625)	(ER)
89187.ISM_09661				(PF01571) (PF08669)
89187.ISM_07005				(PF02485)	plastid
89187.ISM_04300				(PF01571) (PF08669)
89187.ISM_04535				(PF11977)
89187.ISM_13655				(PF09585)
89187.ISM_13650				(PF09585)
89187.ISM_11755				(PF09458)
89187.ISM_14935				(PF00625)
89187.ISM_03645				(PF12411)
89187.ISM_06230				(PF00625)
89187.ISM_10206				(PF02485)

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