Effective results for Roseobacter sp. GAI101 (eggnog40)

Summary

Number of putative secreted proteins: 45
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 14 eukaryotic-like domains, contained in 45 proteins (0 high, 45 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
391589.RGAI101_80				(PF03480)	(ER)
391589.RGAI101_3250				(PF03480)	ER
391589.RGAI101_3251				(PF03480)	ER
391589.RGAI101_130				(PF03480)	mitochondrial; (mitochondrial)
391589.RGAI101_3262				(PF03480)	(ER)
391589.RGAI101_1839				(PF03480)	ER
391589.RGAI101_3843				(PF05830)	mitochondrial
391589.RGAI101_4031				(PF03480)	(mitochondrial); mitochondrial
391589.RGAI101_429				(PF11977)	ER
391589.RGAI101_3470				(PF03480)	ER
391589.RGAI101_1575				(PF03480)	ER; (ER)
391589.RGAI101_2981				(PF13704)	(ER)
391589.RGAI101_1187				(PF03480)	(mitochondrial)
391589.RGAI101_3801				(PF03480)	ER
391589.RGAI101_2197				(PF03480)	ER
391589.RGAI101_218				(PF03480)	ER; (ER)
391589.RGAI101_1334				(PF03480)	ER
391589.RGAI101_2836				(PF03480)	ER; (ER)
391589.RGAI101_2954				(PF03480)	(ER)
391589.RGAI101_798				(PF03480)	(ER)
391589.RGAI101_2743				(PF10013)	(mitochondrial); not used
391589.RGAI101_2011				(PF02485)	plastid
391589.RGAI101_3282				(PF03480)	(plastid)
391589.RGAI101_3850				(PF03480)	mitochondrial
391589.RGAI101_1306				(PF14145)	(mitochondrial)
391589.RGAI101_813				(PF13704)
391589.RGAI101_2578				(PF09585)
391589.RGAI101_968				(PF09585)
391589.RGAI101_4181				(PF13704)
391589.RGAI101_4182				(PF03480)
391589.RGAI101_3342				(PF09731)
391589.RGAI101_3664				(PF13704)
391589.RGAI101_1013				(PF01179)
391589.RGAI101_3283				(PF05686)
391589.RGAI101_437				(PF03480)
391589.RGAI101_935				(PF01179)
391589.RGAI101_619				(PF16952)
391589.RGAI101_2466				(PF13704)
391589.RGAI101_186				(PF03480)
391589.RGAI101_1890				(PF02485)
391589.RGAI101_1949				(PF02460)
391589.RGAI101_154				(PF14145)
391589.RGAI101_237				(PF03480)
391589.RGAI101_2314				(PF09458)
391589.RGAI101_953				(PF03480)

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