Effective results for Chlorobium limicola DSM 245 (eggnog40)

Summary

Number of putative secreted proteins: 50
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 20 eukaryotic-like domains, contained in 50 proteins (1 high, 49 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
290315.Clim_0021				(PF12159) (PF10693)	ER; (ER)
290315.Clim_1409				PF10046	(ER)
290315.Clim_2364				(PF02374)	mitochondrial
290315.Clim_0078				(PF02374)	(mitochondrial)
290315.Clim_1216				(PF02374)	(mitochondrial); mitochondrial
290315.Clim_0784				(PF13271)	ER; (ER)
290315.Clim_2143				(PF02374)	mitochondrial
290315.Clim_2147				(PF02374)	(mitochondrial); mitochondrial
290315.Clim_0966				(PF02374)	(mitochondrial)
290315.Clim_1931				(PF08843)	mitochondrial; (mitochondrial)
290315.Clim_1667				(PF13394)	(ER)
290315.Clim_1020				(PF01078)	(mitochondrial)
290315.Clim_0952				(PF04422) (PF04432)
290315.Clim_2156				(PF11965) (PF02514)
290315.Clim_2154				(PF11965) (PF02514)
290315.Clim_1791				(PF04422) (PF04432)
290315.Clim_1914				(PF13394)
290315.Clim_1913				(PF13394)
290315.Clim_1755				(PF08843)
290315.Clim_0678				(PF13394)
290315.Clim_2384				(PF13394)
290315.Clim_0605				(PF01078)
290315.Clim_0116				(PF08843)
290315.Clim_0082				(PF09366)
290315.Clim_2352				(PF09366)
290315.Clim_1414				(PF13394)
290315.Clim_0278				(PF04765)
290315.Clim_1018				(PF02514)
290315.Clim_0440				(PF08843)
290315.Clim_1663				(PF14252)
290315.Clim_1871				(PF14252)
290315.Clim_1874				(PF14252)
290315.Clim_1476				(PF16095)
290315.Clim_0052				(PF01823)
290315.Clim_1467				(PF13271)
290315.Clim_2160				(PF14252)
290315.Clim_1022				(PF02514)
290315.Clim_1021				(PF01078)
290315.Clim_0551				(PF02374)
290315.Clim_1232				(PF16114)
290315.Clim_1492				(PF01078)
290315.Clim_1493				(PF01078)
290315.Clim_0785				(PF04326)
290315.Clim_2459				(PF13271)
290315.Clim_2269				(PF04326)
290315.Clim_2462				(PF04326)
290315.Clim_0431				(PF02475)
290315.Clim_1766				(PF13394)
290315.Clim_1587				(PF04326)
290315.Clim_0213				(PF08843)

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