Effective results for Pelagibacterium halotolerans B2 (eggnog40)

Summary

Number of putative secreted proteins: 48
- Predicted by T4SEpre: 53
- Predicted by EffectiveELD: 3 eukaryotic-like domains, contained in 5 proteins (0 high, 5 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): Type IV

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
1082931.KKY_532			+		ER
1082931.KKY_3275				(PF06764)	ER
1082931.KKY_3894			+		ER
1082931.KKY_3310			+		ER
1082931.KKY_3435			+		(mitochondrial)
1082931.KKY_1467			+		ER
1082931.KKY_2006			+		ER
1082931.KKY_876			+		ER
1082931.KKY_2442			+		ER
1082931.KKY_2446			+		ER
1082931.KKY_542			+		ER
1082931.KKY_1377			+		ER
1082931.KKY_3236			+		ER
1082931.KKY_1197			+		ER
1082931.KKY_3070			+		mitochondrial
1082931.KKY_1876			+		(plastid)
1082931.KKY_1902			+	(PF01442)
1082931.KKY_3021			+		(mitochondrial)
1082931.KKY_3126			+		(mitochondrial)
1082931.KKY_2418			+		(mitochondrial)
1082931.KKY_889			+
1082931.KKY_2795				(PF06764)
1082931.KKY_2429			+
1082931.KKY_380			+
1082931.KKY_1311			+
1082931.KKY_2764			+
1082931.KKY_2685			+
1082931.KKY_3248			+
1082931.KKY_3763			+
1082931.KKY_330			+
1082931.KKY_375			+
1082931.KKY_3709				(PF12681)
1082931.KKY_1939				(PF12681)
1082931.KKY_1449			+
1082931.KKY_3178			+
1082931.KKY_2711			+
1082931.KKY_796			+
1082931.KKY_1948			+
1082931.KKY_2444			+
1082931.KKY_1548			+
1082931.KKY_946			+
1082931.KKY_1396			+
1082931.KKY_204			+
1082931.KKY_2075			+
1082931.KKY_1997			+
1082931.KKY_2888			+
1082931.KKY_3671			+
1082931.KKY_1337			+

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

• T4SEpre bpbAac predictions (T4SEpre_bpbAac_FinalResult.csv)
• T4SEpre psAac predictions (T4SEpre_psAac_FinalResult.csv)
• 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: YES (FDR = 7.2 %)
  Estimated copy number = 1.2 (12/10 KEGG proteins)
• 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=
==========================================================