Effective results for Vibrio shilonii AK1 (eggnog40)

Summary

Number of putative secreted proteins: 107
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 32 eukaryotic-like domains, contained in 107 proteins (1 high, 106 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): Type VI

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
391591.VSAK1_06775				(PF14864) (PF14863)	ER; (ER)
391591.VSAK1_19414				(PF14864) (PF14863)	ER
391591.VSAK1_19749				(PF14864) (PF14863)	ER
391591.VSAK1_21904				(PF14248)	ER
391591.VSAK1_25035				(PF06500)	ER
391591.VSAK1_15927				(PF17186)	ER
391591.VSAK1_25660				(PF13533)	ER
391591.VSAK1_19109				(PF13533)	ER
391591.VSAK1_18679				(PF02275)	ER
391591.VSAK1_23714				(PF12849)	ER
391591.VSAK1_17877				(PF13533)	ER
391591.VSAK1_23099				(PF12849)	ER
391591.VSAK1_15692				(PF12849)	ER
391591.VSAK1_19304				(PF13533)	ER
391591.VSAK1_17467				(PF02274)	(mitochondrial)
391591.VSAK1_21609				(PF13533)	ER
391591.VSAK1_25255				(PF13533)	ER; (ER)
391591.VSAK1_21619				(PF02275)	ER; (ER)
391591.VSAK1_01177				(PF14707)	ER
391591.VSAK1_01172				(PF14248)	ER
391591.VSAK1_23364				(PF13533)	ER
391591.VSAK1_22509				(PF13533)	ER
391591.VSAK1_14212				(PF12849)	ER
391591.VSAK1_17797				(PF02275)	ER; (ER)
391591.VSAK1_17967				(PF12849)	ER
391591.VSAK1_18549				(PF13533)	ER
391591.VSAK1_14480				(PF12849)	(ER)
391591.VSAK1_26235				(PF12849)	(mitochondrial)
391591.VSAK1_18022				(PF13533)	ER
391591.VSAK1_06205				(PF13533)	(ER)
391591.VSAK1_06360				(PF17186)	ER
391591.VSAK1_19939				(PF06500)	ER
391591.VSAK1_05300				(PF08180)	ER
391591.VSAK1_26010				(PF02275)	ER
391591.VSAK1_16842				(PF13533)	ER
391591.VSAK1_13080				(PF00669)	(plastid)
391591.VSAK1_06505				(PF01228) (PF02901)
391591.VSAK1_08536				(PF00669)	plastid
391591.VSAK1_02299				(PF00669)	plastid
391591.VSAK1_02989				(PF00669)	plastid
391591.VSAK1_00285				(PF01228) (PF02901)
391591.VSAK1_02999				(PF00669)	(plastid)
391591.VSAK1_02994				(PF00669)	plastid
391591.VSAK1_15902				(PF05524) (PF02896)
391591.VSAK1_18092				(PF01228) (PF02901)
391591.VSAK1_23644				(PF01228) (PF02901)
391591.VSAK1_14465				(PF13533)	(mitochondrial)
391591.VSAK1_17487				(PF01228) (PF02901)
391591.VSAK1_08531				(PF00669)	(plastid)
391591.VSAK1_23584				(PF05524) (PF02896)
391591.VSAK1_06520				(PF05524) (PF02896)
391591.VSAK1_11143				(PF05524) (PF02896)
391591.VSAK1_25580				(PF13533)
391591.VSAK1_07474				(PF13289)
391591.VSAK1_12825				(PF02274)
391591.VSAK1_08431				(PF13289)
391591.VSAK1_02984				(PF00669)
391591.VSAK1_05350				(PF02896)
391591.VSAK1_25905				(PF13533)
391591.VSAK1_11138				(PF02896)
391591.VSAK1_05710				(PF02482)
391591.VSAK1_20559				(PF02274)
391591.VSAK1_04920				(PF05706)
391591.VSAK1_15572				(PF04664)
391591.VSAK1_00627				(PF00834)
391591.VSAK1_13025				(PF00669)
391591.VSAK1_01577				(PF12464)
391591.VSAK1_11445				(PF05524)
391591.VSAK1_17022				(PF16332)
391591.VSAK1_02034				(PF02274)
391591.VSAK1_25835				(PF01786)	not used
391591.VSAK1_19339				(PF01116)
391591.VSAK1_14335				(PF01116)
391591.VSAK1_20109				(PF02274)
391591.VSAK1_04885				(PF00834)
391591.VSAK1_02234				(PF00669)
391591.VSAK1_19344				(PF01116)
391591.VSAK1_00572				(PF01116)
391591.VSAK1_09353				(PF00834)
391591.VSAK1_17312				(PF13289)
391591.VSAK1_25170				(PF01116)
391591.VSAK1_16192				(PF12464)
391591.VSAK1_01934				(PF02482)
391591.VSAK1_18177				(PF13533)
391591.VSAK1_14127				(PF02482)
391591.VSAK1_05635				(PF02896)
391591.VSAK1_09128				PF03175
391591.VSAK1_20054				(PF12464)
391591.VSAK1_03660				(PF12344)
391591.VSAK1_21474				(PF13289)
391591.VSAK1_24750				(PF08732)
391591.VSAK1_01107				(PF13533)
391591.VSAK1_23484				(PF01116)
391591.VSAK1_20049				(PF12464)
391591.VSAK1_02079				(PF06500)	not used
391591.VSAK1_21234				(PF08975)
391591.VSAK1_20524				(PF10013)	not used
391591.VSAK1_19549				(PF13533)
391591.VSAK1_06550				(PF12344)
391591.VSAK1_13150				(PF09811)
391591.VSAK1_25055				(PF10063)
391591.VSAK1_19014				(PF02274)
391591.VSAK1_25840				(PF01786)	not used
391591.VSAK1_19239				(PF02482)
391591.VSAK1_15397				(PF14707)
391591.VSAK1_15392				(PF14707)
391591.VSAK1_22489				(PF02482)

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: YES (FDR = 7.7 %)
  Estimated copy number = 1.0 (8/8 KEGG proteins)

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