Effective results for Dechloromonas aromatica RCB (eggnog40)

Summary

Number of putative secreted proteins: 56
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 16 eukaryotic-like domains, contained in 56 proteins (0 high, 56 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
159087.Daro_1831				(PF13386)	ER
159087.Daro_2578				(PF09459)	ER
159087.Daro_3570				(PF13606)	ER
159087.Daro_1186				(PF05023)	ER
159087.Daro_1504				(PF00139)	ER
159087.Daro_0059				(PF12974)	ER
159087.Daro_1502				(PF04862)	ER
159087.Daro_1862				(PF12974)	ER
159087.Daro_0865				(PF01118)	(ER)
159087.Daro_3323				(PF02239)	ER
159087.Daro_3260				(PF02239)	ER
159087.Daro_3685				(PF12974)	ER
159087.Daro_0241				(PF12974)	ER
159087.Daro_2490				(PF12974)	ER
159087.Daro_3270				(PF02239)	ER
159087.Daro_3273				(PF09459)	ER
159087.Daro_3274				(PF02239)	ER
159087.Daro_4085				(PF12974)	ER; (ER)
159087.Daro_3714				(PF12974)	ER
159087.Daro_3099				(PF12974)	ER
159087.Daro_2602				(PF12974)	(mitochondrial)
159087.Daro_3950				(PF01814)	mitochondrial; (mitochondrial)
159087.Daro_2956				(PF13386)	ER
159087.Daro_1826				(PF12974)	mitochondrial
159087.Daro_1049				(PF13386)	ER
159087.Daro_3807				(PF01118)	(mitochondrial)
159087.Daro_3954				(PF01814)	(ER)
159087.Daro_1617				(PF01814)
159087.Daro_3376				(PF11969)
159087.Daro_2767				(PF01814)
159087.Daro_2762				(PF01814)
159087.Daro_2507				(PF04383)
159087.Daro_1670				(PF01814)
159087.Daro_0906				(PF01118)
159087.Daro_2683				(PF01814)
159087.Daro_1863				(PF01118)
159087.Daro_0910				(PF01814)
159087.Daro_3783				(PF01118)
159087.Daro_1423				(PF13606)
159087.Daro_0795				(PF04383)
159087.Daro_1333				(PF01814)
159087.Daro_1660				(PF01814)
159087.Daro_3696				(PF01814)
159087.Daro_2268				(PF01814)
159087.Daro_1355				(PF01118)
159087.Daro_0364				(PF01814)
159087.Daro_0996				(PF01814)
159087.Daro_1373				(PF14022)
159087.Daro_1371				(PF14022)
159087.Daro_3239				(PF01118)
159087.Daro_0968				(PF00025)
159087.Daro_0965				(PF01814)
159087.Daro_3414				(PF07701)
159087.Daro_0398				(PF00614)
159087.Daro_0392				(PF00614)
159087.Daro_0396				(PF00614)

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 = 2.5 (20/8 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=
==========================================================