Effective results for Acidithiobacillus ferrivorans SS3 (eggnog40)

Summary

Number of putative secreted proteins: 58
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 20 eukaryotic-like domains, contained in 58 proteins (1 high, 57 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
743299.Acife_0762				(PF03625)	ER
743299.Acife_3007				(PF00216)	(mitochondrial)
743299.Acife_2493				(PF03625)	ER
743299.Acife_2019				(PF00224) (PF00113)	(mitochondrial)
743299.Acife_1456				(PF03625)	(ER)
743299.Acife_2316				(PF05704)	(mitochondrial)
743299.Acife_0185				(PF00224)	(mitochondrial)
743299.Acife_0730				(PF00216)	mitochondrial
743299.Acife_3145				(PF00016) (PF02788)
743299.Acife_0794				(PF00224)	(mitochondrial)
743299.Acife_2232				(PF00016) (PF02788)
743299.Acife_1242				(PF00016) (PF02788)
743299.Acife_1961				(PF00216)	not used
743299.Acife_3108				(PF14792)
743299.Acife_2089				(PF06745)
743299.Acife_0804				(PF00162)
743299.Acife_0752				(PF00216)
743299.Acife_1375				(PF01906)
743299.Acife_1374				(PF01906)
743299.Acife_2533				(PF00216)
743299.Acife_1404				(PF00216)
743299.Acife_2470				(PF01597)
743299.Acife_0231				(PF03625)
743299.Acife_0696				(PF03625)
743299.Acife_1962				(PF00216)
743299.Acife_2468				(PF01597)
743299.Acife_0359				(PF00216)
743299.Acife_1222				(PF01878)
743299.Acife_2148				(PF00224)
743299.Acife_1787				(PF01597)
743299.Acife_3008				(PF00216)
743299.Acife_0977				PF11331
743299.Acife_0793				(PF00113)
743299.Acife_1330				(PF06745)
743299.Acife_2239				(PF00216)
743299.Acife_2231				(PF00101)
743299.Acife_1956				(PF00216)
743299.Acife_0637				(PF00016)
743299.Acife_1327				(PF06745)
743299.Acife_2312				(PF15610)
743299.Acife_2957				(PF01906)
743299.Acife_0057				(PF01906)
743299.Acife_0186				(PF00162)
743299.Acife_1678				(PF00862)
743299.Acife_2377				(PF16565)
743299.Acife_2608				(PF00216)
743299.Acife_1481				(PF01878)
743299.Acife_0671				(PF13207)
743299.Acife_3144				(PF00101)
743299.Acife_1396				(PF00216)
743299.Acife_1534				(PF11563)
743299.Acife_1381				(PF03625)
743299.Acife_3118				(PF01878)
743299.Acife_0733				(PF11563)
743299.Acife_0734				(PF11563)
743299.Acife_0737				(PF11563)
743299.Acife_1359				(PF00113)
743299.Acife_2070				(PF01597)

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