Effective results for marine gamma proteobacterium HTCC2148 (eggnog40)

Summary

Number of putative secreted proteins: 97
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 29 eukaryotic-like domains, contained in 97 proteins (2 high, 95 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
247634.GPB2148_3873				(PF06742) (PF06863)	mitochondrial
247634.GPB2148_3620				(PF06742) (PF06863)	ER
247634.GPB2148_3628				(PF06742) (PF06863)	ER
247634.GPB2148_3576				(PF01571) (PF08669)	ER; (ER)
247634.GPB2148_2123				(PF06742) (PF06863)	ER
247634.GPB2148_165				(PF15071)	ER
247634.GPB2148_1519				(PF14216)	(ER)
247634.GPB2148_877				(PF14863)	ER
247634.GPB2148_3044				(PF06863)	ER
247634.GPB2148_1560				(PF11815)	mitochondrial; (mitochondrial)
247634.GPB2148_2866				PF08549	ER
247634.GPB2148_2145				(PF16884)	ER; (mitochondrial)
247634.GPB2148_2149				(PF00848)	(mitochondrial); (plastid)
247634.GPB2148_1205				(PF14863)	ER
247634.GPB2148_3766				(PF06742)	ER
247634.GPB2148_508				(PF03055)	ER
247634.GPB2148_2115				(PF06742)	ER
247634.GPB2148_2744				(PF06742) (PF06863)	(mitochondrial)
247634.GPB2148_1257				(PF13469)	mitochondrial
247634.GPB2148_3863				(PF01571) (PF08669)
247634.GPB2148_497				(PF01571) (PF08669)
247634.GPB2148_3845				(PF06742) (PF06863)
247634.GPB2148_2678				(PF01571) (PF08669)
247634.GPB2148_3624				(PF01571) (PF08669)
247634.GPB2148_1990				(PF01571) (PF08669)
247634.GPB2148_1886				(PF12038)	(mitochondrial)
247634.GPB2148_3142				(PF01571) (PF08669)
247634.GPB2148_3554				(PF01571) (PF08669)
247634.GPB2148_1848				(PF01571) (PF08669)
247634.GPB2148_3756				(PF01571) (PF08669)
247634.GPB2148_2901				(PF01571) (PF08669)
247634.GPB2148_1808				(PF01571) (PF08669)
247634.GPB2148_1657				(PF01571) (PF08669)
247634.GPB2148_3394				(PF03055)
247634.GPB2148_2355				(PF03055)
247634.GPB2148_1710				(PF14336)
247634.GPB2148_1717				(PF00848)
247634.GPB2148_541				(PF00368)
247634.GPB2148_549				(PF09752)
247634.GPB2148_1351				(PF13469)
247634.GPB2148_1384				(PF12740)
247634.GPB2148_1385				(PF06314)
247634.GPB2148_2739				(PF00848)
247634.GPB2148_2933				(PF00848)
247634.GPB2148_2703				(PF13469)
247634.GPB2148_804				(PF13469)
247634.GPB2148_2897				(PF07700)
247634.GPB2148_1722				(PF00848)
247634.GPB2148_873				(PF03055)
247634.GPB2148_3614				(PF13469)
247634.GPB2148_347				(PF13469)
247634.GPB2148_2665				(PF06742)
247634.GPB2148_2067				(PF00848)
247634.GPB2148_3136				(PF03055)
247634.GPB2148_3052				(PF03055)
247634.GPB2148_2982				(PF00848)
247634.GPB2148_354				(PF12576)
247634.GPB2148_3580				(PF06314)
247634.GPB2148_3029				(PF16884)
247634.GPB2148_3339				(PF16884)
247634.GPB2148_63				(PF06314)
247634.GPB2148_1887				(PF02958)
247634.GPB2148_1955				(PF00848)
247634.GPB2148_3321				(PF00848)
247634.GPB2148_3818				(PF16884)
247634.GPB2148_3008				(PF00848)
247634.GPB2148_251				(PF10013)	not used
247634.GPB2148_257				(PF13469)
247634.GPB2148_2155				(PF16884)
247634.GPB2148_3170				(PF00848)
247634.GPB2148_2948				(PF16884)
247634.GPB2148_2947				(PF00848)
247634.GPB2148_885				(PF06314)
247634.GPB2148_2012				(PF02026)
247634.GPB2148_408				(PF13661)
247634.GPB2148_3760				(PF12740)
247634.GPB2148_1685				(PF01571)
247634.GPB2148_2005				(PF16884)
247634.GPB2148_3578				(PF13469)
247634.GPB2148_1910				(PF00848)
247634.GPB2148_2582				(PF02958)
247634.GPB2148_1697				(PF13469)
247634.GPB2148_3566				(PF06742)
247634.GPB2148_1679				(PF14863)
247634.GPB2148_1277				(PF06742)
247634.GPB2148_1271				(PF13469)
247634.GPB2148_1642				(PF00848)
247634.GPB2148_1482				PF06405
247634.GPB2148_1480				(PF11074)
247634.GPB2148_2113				(PF10504)
247634.GPB2148_3500				(PF03982)
247634.GPB2148_1651				(PF13469)
247634.GPB2148_2121				(PF16884)
247634.GPB2148_3436				(PF07700)
247634.GPB2148_3728				(PF00368)
247634.GPB2148_3652				(PF00848)
247634.GPB2148_1817				(PF11815)

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