Effective results for Reinekea blandensis MED297 (eggnog40)

Summary

Number of putative secreted proteins: 40
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 24 eukaryotic-like domains, contained in 40 proteins (3 high, 37 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
314283.MED297_06349				(PF05524) (PF02896)	(ER)
314283.MED297_09086				(PF03422) (PF00030)	ER
314283.MED297_19437				(PF13582)	ER; (ER)
314283.MED297_09956				(PF03422)	(ER)
314283.MED297_19582				(PF04862)	ER
314283.MED297_15070				PF12537	ER
314283.MED297_19327				(PF03422)	ER; mitochondrial
314283.MED297_05009				(PF14329)	ER
314283.MED297_10006				(PF03662)	mitochondrial
314283.MED297_04654				(PF03199) (PF03917)
314283.MED297_11615				(PF05524) (PF02896)
314283.MED297_20422				(PF03147) (PF01409)
314283.MED297_09201				(PF03422)	(ER)
314283.MED297_17652				PF03935	(ER)
314283.MED297_19597				(PF05524) (PF02896)
314283.MED297_09051				(PF03422)	(plastid)
314283.MED297_10966				(PF05524) (PF02896)
314283.MED297_09991				(PF06165) (PF17167)
314283.MED297_21167				(PF14329)	(ER)
314283.MED297_08491				(PF00314) (PF03422)
314283.MED297_10586				(PF06165) (PF17167)
314283.MED297_06564				(PF06165) (PF17167)
314283.MED297_10436				(PF05524) (PF02896)
314283.MED297_07198				(PF05524) (PF02896)
314283.MED297_20302				(PF06042)
314283.MED297_11715				PF08030
314283.MED297_15280				(PF05686)
314283.MED297_00540				(PF14329)
314283.MED297_16204				(PF03422)
314283.MED297_09206				(PF08695)
314283.MED297_09151				(PF00030)
314283.MED297_02162				(PF12038)
314283.MED297_11000				(PF03422)
314283.MED297_06554				(PF06042)
314283.MED297_02785				(PF07678)
314283.MED297_17752				(PF01409)
314283.MED297_17747				(PF03147)
314283.MED297_12887				(PF00829)	not used
314283.MED297_12882				(PF00829)	not used
314283.MED297_06029				(PF02896)

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 = 1.0 (8/8 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=
==========================================================