Effective results for Silicibacter lacuscaerulensis ITI-1157 (eggnog40)

Summary

Number of putative secreted proteins: 38
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 15 eukaryotic-like domains, contained in 38 proteins (5 high, 33 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
644107.SL1157_3140				(PF08669) (PF16350)	ER; (ER)
644107.SL1157_1253				(PF08669) (PF16350)	ER
644107.SL1157_0301				(PF08669) (PF16350)	(ER)
644107.SL1157_3076				(PF04143)	ER
644107.SL1157_3075				(PF04143)	ER
644107.SL1157_1119				(PF13704)	mitochondrial
644107.SL1157_0949				(PF04143)	(ER)
644107.SL1157_0446				(PF04143)	ER
644107.SL1157_2967				(PF08669)	(mitochondrial)
644107.SL1157_1241				(PF02931)	ER
644107.SL1157_0334				(PF08669) (PF16350)	(ER)
644107.SL1157_1799				(PF08669) (PF16350)
644107.SL1157_1637				(PF14216)	(mitochondrial)
644107.SL1157_1723				(PF08669) (PF16350)
644107.SL1157_1584				PF00238	(mitochondrial); not used
644107.SL1157_1118				(PF02485)	(ER)
644107.SL1157_1474				(PF08669) (PF16350)
644107.SL1157_1470				(PF08669) (PF16350)
644107.SL1157_2086				(PF13875)
644107.SL1157_0966				PF07647
644107.SL1157_1975				(PF09458)
644107.SL1157_1122				(PF13704)
644107.SL1157_0445				(PF04143)
644107.SL1157_1583				PF00238	not used
644107.SL1157_1939				PF07647
644107.SL1157_1938				(PF05023)
644107.SL1157_0462				(PF04143)
644107.SL1157_2648				(PF13704)
644107.SL1157_0898				(PF02485)
644107.SL1157_1048				(PF09731)
644107.SL1157_2074				PF11781
644107.SL1157_3246				(PF13704)
644107.SL1157_3243				(PF13704)
644107.SL1157_0758				(PF13455)
644107.SL1157_2277				(PF08669)
644107.SL1157_1349				(PF08669)
644107.SL1157_3268				(PF08669)
644107.SL1157_2427				(PF08669)

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