Effective results for Gallionella capsiferriformans ES-2 (eggnog40)

Summary

Number of putative secreted proteins: 74
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 10 eukaryotic-like domains, contained in 74 proteins (1 high, 73 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
395494.Galf_2528				(PF13426)	ER
395494.Galf_1548				(PF13426)	ER
395494.Galf_1308				(PF12974)	(ER)
395494.Galf_2334				(PF13426)	ER
395494.Galf_1847				(PF13426)	ER
395494.Galf_2239				(PF13426)	ER
395494.Galf_2164				(PF13426)	(mitochondrial)
395494.Galf_1664				(PF06414)	(mitochondrial)
395494.Galf_2007				(PF12974)	ER
395494.Galf_1879				(PF13426)	ER
395494.Galf_2370				(PF13426)	ER
395494.Galf_2117				(PF13426)	ER
395494.Galf_2286				(PF13426)	ER
395494.Galf_1717				(PF12974)	ER; (ER)
395494.Galf_2926				(PF12974)	ER
395494.Galf_2741				(PF12974)	ER
395494.Galf_1639				(PF13426)	ER
395494.Galf_1636				(PF13426)	(mitochondrial)
395494.Galf_2677				PF10563	ER
395494.Galf_0102				(PF13426)	ER
395494.Galf_0758				(PF12974)	ER
395494.Galf_2060				(PF13426)	mitochondrial
395494.Galf_2260				(PF13426)	ER
395494.Galf_1958				(PF13426)	(mitochondrial)
395494.Galf_1313				(PF12974)	ER
395494.Galf_1869				(PF13426)	(mitochondrial)
395494.Galf_1693				(PF00543)	(mitochondrial)
395494.Galf_2349				(PF13426)	(ER)
395494.Galf_0070				(PF00543)	(mitochondrial)
395494.Galf_0901				(PF13207)	(plastid)
395494.Galf_1082				(PF13844)	(mitochondrial)
395494.Galf_1948				(PF00216)
395494.Galf_0716				(PF00216)
395494.Galf_0374				(PF08357)
395494.Galf_1153				(PF13426)
395494.Galf_2335				(PF13426)
395494.Galf_0798				(PF05173)
395494.Galf_2152				(PF05173)
395494.Galf_1147				(PF00216)
395494.Galf_0639				(PF13426)
395494.Galf_1660				(PF05173)
395494.Galf_0881				(PF00216)
395494.Galf_2568				(PF13426)
395494.Galf_1472				(PF00216)
395494.Galf_1479				(PF06414)
395494.Galf_0989				(PF00216)
395494.Galf_1116				(PF00216)
395494.Galf_1101				(PF13844)
395494.Galf_0859				(PF00543)
395494.Galf_1630				(PF13426)
395494.Galf_2350				(PF13426)
395494.Galf_1629				(PF13426)
395494.Galf_1624				(PF00216)
395494.Galf_0120				(PF13426)
395494.Galf_2731				(PF13426)
395494.Galf_1501				(PF00216)
395494.Galf_0929				(PF00543)
395494.Galf_0759				(PF13426)
395494.Galf_2062				(PF13426)
395494.Galf_2665				(PF13426)
395494.Galf_1970				(PF13426)
395494.Galf_0116				(PF13426)
395494.Galf_1376				(PF13426)
395494.Galf_1377				(PF13426)
395494.Galf_0762				(PF13426)
395494.Galf_2184				(PF00543)
395494.Galf_0838				(PF00543)
395494.Galf_0833				(PF13426)
395494.Galf_0836				(PF13426)
395494.Galf_1363				(PF00216)
395494.Galf_2262				(PF13426)
395494.Galf_1080				(PF13844)
395494.Galf_1081				(PF13844)
395494.Galf_1083				(PF13844)

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