Effective results for Halomonas sp. TD01 (eggnog40)

Summary

Number of putative secreted proteins: 36
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 12 eukaryotic-like domains, contained in 36 proteins (4 high, 32 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
999141.GME_08884				(PF02275)	ER
999141.GME_16777				(PF02275)	ER
999141.GME_09269				(PF00209)	ER
999141.GME_08049				PF04910	(mitochondrial); mitochondrial
999141.GME_10066				(PF00209)	(mitochondrial)
999141.GME_06799				(PF00209)	ER; (ER)
999141.GME_00350				(PF02028)	(ER)
999141.GME_14038				(PF02028)	ER
999141.GME_03097				(PF02028)	ER
999141.GME_12302				(PF13332)	(mitochondrial)
999141.GME_18188				(PF02028)	ER
999141.GME_13435				(PF00209)	(ER)
999141.GME_05145				(PF01679)	ER; not used
999141.GME_11747				(PF09994)
999141.GME_17607				(PF12038)
999141.GME_00870				(PF02028)
999141.GME_01684				(PF09994)
999141.GME_12337				(PF13332)	not used
999141.GME_18932				(PF00209)
999141.GME_15195				(PF10908)	not used
999141.GME_07231				(PF13875)
999141.GME_05325				(PF02028)	not used
999141.GME_05320				(PF02028)
999141.GME_17582				(PF09994)
999141.GME_09571				(PF02028)
999141.GME_14033				(PF02028)	not used
999141.GME_12312				(PF13332)
999141.GME_09551				(PF02028)
999141.GME_05670				(PF10908)
999141.GME_10016				(PF02275)
999141.GME_02144				(PF10013)	not used
999141.GME_18765				(PF01679)
999141.GME_11567				PF06597
999141.GME_14193				(PF00209)
999141.GME_11577				PF06597
999141.GME_11572				PF06597

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 = 1.25 (10/8 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=
==========================================================