Effective results for Pyramidobacter piscolens W5455 (eggnog40)

Summary

Number of putative secreted proteins: 87
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 22 eukaryotic-like domains, contained in 87 proteins (8 high, 79 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
352165.HMPREF7215_1930				(PF01210) (PF02317)	mitochondrial; (mitochondrial)
352165.HMPREF7215_2403				PF03577	ER
352165.HMPREF7215_2408				PF03577	ER
352165.HMPREF7215_2409				PF03577	ER
352165.HMPREF7215_1810				(PF04961)	(ER)
352165.HMPREF7215_2023				(PF01970)	ER
352165.HMPREF7215_1100				(PF03553)	mitochondrial
352165.HMPREF7215_1851				(PF01970)	ER
352165.HMPREF7215_1461				PF03577	ER
352165.HMPREF7215_1861				(PF01970)	ER
352165.HMPREF7215_0402				(PF03553)	(mitochondrial)
352165.HMPREF7215_2414				PF03577	ER
352165.HMPREF7215_2268				(PF03553)	ER
352165.HMPREF7215_2446				PF03577	ER
352165.HMPREF7215_1818				(PF05684)	ER
352165.HMPREF7215_2050				(PF05684)	ER
352165.HMPREF7215_1342				(PF03553)	ER
352165.HMPREF7215_1987				(PF01970)	ER
352165.HMPREF7215_1166				(PF03553)	ER
352165.HMPREF7215_1809				(PF02971) (PF07837)
352165.HMPREF7215_1945				(PF01210) (PF02317)
352165.HMPREF7215_1706				(PF01970)	(ER)
352165.HMPREF7215_2289				(PF07687)	(mitochondrial)
352165.HMPREF7215_1920				(PF03553)	(ER)
352165.HMPREF7215_1257				(PF10437)	(mitochondrial)
352165.HMPREF7215_0011				(PF01970)
352165.HMPREF7215_1008				(PF05693)
352165.HMPREF7215_1192				(PF07687)
352165.HMPREF7215_1191				(PF07687)
352165.HMPREF7215_2094				(PF01970)
352165.HMPREF7215_0709				(PF07687)
352165.HMPREF7215_0814				(PF07687)
352165.HMPREF7215_2551				(PF00940)
352165.HMPREF7215_1419				(PF07687)
352165.HMPREF7215_1152				PF03577
352165.HMPREF7215_2167				(PF03553)
352165.HMPREF7215_1120				(PF07687)
352165.HMPREF7215_1127				(PF07687)
352165.HMPREF7215_2621				(PF01992)
352165.HMPREF7215_1133				(PF04961)
352165.HMPREF7215_0444				(PF07687)
352165.HMPREF7215_0445				(PF07687)
352165.HMPREF7215_1220				(PF10437)
352165.HMPREF7215_0067				(PF10437)
352165.HMPREF7215_1977				(PF07687)
352165.HMPREF7215_2567				PF04275
352165.HMPREF7215_1036				(PF07687)
352165.HMPREF7215_1218				(PF02347)
352165.HMPREF7215_1935				(PF03313)
352165.HMPREF7215_1939				(PF03313)
352165.HMPREF7215_1938				(PF03313)
352165.HMPREF7215_1733				(PF07687)
352165.HMPREF7215_1736				(PF07687)	not used
352165.HMPREF7215_1440				(PF07687)
352165.HMPREF7215_1115				(PF07687)
352165.HMPREF7215_0462				(PF07687)
352165.HMPREF7215_1118				(PF07687)
352165.HMPREF7215_0880				(PF03313)
352165.HMPREF7215_0454				(PF01210)
352165.HMPREF7215_0506				(PF07687)
352165.HMPREF7215_1877				(PF07687)
352165.HMPREF7215_1304				(PF07687)
352165.HMPREF7215_1913				(PF07687)
352165.HMPREF7215_2066				(PF01969)
352165.HMPREF7215_2618				(PF01496)
352165.HMPREF7215_1091				(PF07687)
352165.HMPREF7215_1099				(PF07687)
352165.HMPREF7215_1254				(PF02347)
352165.HMPREF7215_1253				(PF02347)
352165.HMPREF7215_0239				(PF07687)
352165.HMPREF7215_2688				(PF03313)
352165.HMPREF7215_1063				(PF07687)
352165.HMPREF7215_1085				(PF01970)
352165.HMPREF7215_1087				(PF01970)
352165.HMPREF7215_0119				(PF14622)
352165.HMPREF7215_1141				(PF07687)
352165.HMPREF7215_1345				(PF03553)
352165.HMPREF7215_0749				(PF14622)
352165.HMPREF7215_0324				(PF01969)
352165.HMPREF7215_0699				(PF02933)
352165.HMPREF7215_1646				(PF07687)
352165.HMPREF7215_1641				(PF07687)
352165.HMPREF7215_2737				(PF01991)
352165.HMPREF7215_2735				(PF01496)
352165.HMPREF7215_2738				(PF01992)
352165.HMPREF7215_1350				(PF02347)
352165.HMPREF7215_0763				(PF07687)

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