Effective results for Gramella forsetii KT0803 (eggnog40)

Summary

Number of putative secreted proteins: 45
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 19 eukaryotic-like domains, contained in 45 proteins (4 high, 41 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
411154.GFO_3289				(PF03321)	mitochondrial; (mitochondrial)
411154.GFO_0711				(PF10988)	(ER)
411154.GFO_3589				(PF08309)	ER
411154.GFO_1858				(PF10988)	ER
411154.GFO_1505				(PF09295)	mitochondrial
411154.GFO_0301				(PF09949)	(mitochondrial)
411154.GFO_3494				(PF08695)	(ER)
411154.GFO_0336				(PF10988)	ER
411154.GFO_2307				(PF08309)	ER
411154.GFO_0659				(PF02494)	ER
411154.GFO_2656				(PF10988)	ER
411154.GFO_3427				(PF08309)	ER
411154.GFO_2927				(PF16313)	ER
411154.GFO_0989				(PF10988)	ER
411154.GFO_3507				PF04733	ER
411154.GFO_1586				PF11074	(mitochondrial)
411154.GFO_0755				(PF01204)	ER
411154.GFO_1801				(PF16313)	ER
411154.GFO_0374				(PF02494)	ER
411154.GFO_1157				(PF08787)	mitochondrial
411154.GFO_1156				(PF08787)	(mitochondrial); mitochondrial
411154.GFO_2059				(PF01400)	ER
411154.GFO_2058				(PF01400)	ER
411154.GFO_1148				(PF08787)	ER
411154.GFO_1145				(PF08787)	ER
411154.GFO_1736				(PF01204)	ER
411154.GFO_0393				(PF02494)	ER
411154.GFO_0266				(PF16313)	ER; (ER)
411154.GFO_2705				(PF12862)	ER
411154.GFO_2577				PF11074	(mitochondrial)
411154.GFO_0242				(PF03321)	(plastid)
411154.GFO_2496				(PF13392) (PF00847)
411154.GFO_0774				(PF13668)	(plastid)
411154.GFO_1847				(PF13668)
411154.GFO_1846				(PF13668)
411154.GFO_0001				(PF08892)
411154.GFO_1181				(PF01204)
411154.GFO_2213				(PF03321)
411154.GFO_0864				PF08513
411154.GFO_0410				(PF13392)
411154.GFO_1924				(PF08892)
411154.GFO_1036				(PF09949)
411154.GFO_0773				(PF13668)
411154.GFO_2427				(PF13392)
411154.GFO_1836				(PF02494)

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