Effective results for Methylococcus capsulatus str. Bath (eggnog40)

Summary

Number of putative secreted proteins: 51
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 18 eukaryotic-like domains, contained in 51 proteins (2 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
243233.MCA2417				(PF02535)	ER
243233.MCA2605				(PF14701)	mitochondrial
243233.MCA0534				(PF02655)	ER
243233.MCA0974				(PF02535)	ER
243233.MCA2799				(PF12483)	(ER)
243233.MCA1517				(PF01609) (PF05598)
243233.MCA1514				(PF01609) (PF05598)
243233.MCA0723				(PF01609) (PF05598)
243233.MCA2868				(PF02655)	(ER)
243233.MCA1580				(PF01609) (PF05598)
243233.MCA0887				(PF01609) (PF05598)
243233.MCA0975				(PF02535)	(plastid)
243233.MCA2556				(PF01609) (PF05598)
243233.MCA0096				(PF01609) (PF05598)
243233.MCA0146				(PF02655)	(plastid)
243233.MCA1956				(PF01609) (PF05598)
243233.MCA1177				(PF01609) (PF05598)
243233.MCA0227				(PF01609) (PF05598)
243233.MCA1312				(PF01609) (PF05598)
243233.MCA2810				(PF01609) (PF05598)
243233.MCA0980				(PF01609) (PF05598)
243233.MCA2964				(PF01609) (PF05598)
243233.MCA2178				(PF01609) (PF05598)
243233.MCA0307				(PF01609) (PF05598)
243233.MCA1090				(PF01609) (PF05598)
243233.MCA2687				(PF01609) (PF05598)
243233.MCA0050				(PF01609) (PF05598)
243233.MCA2511				(PF01609) (PF05598)
243233.MCA1197				(PF01609) (PF05598)
243233.MCA2738				(PF00215)
243233.MCA0013				(PF02823)
243233.MCA1608				(PF11074)
243233.MCA0730				(PF13020)
243233.MCA2862				(PF02655)
243233.MCA1802				(PF13875)
243233.MCA2872				(PF08491)
243233.MCA1728				(PF02535)
243233.MCA1212				(PF05189)
243233.MCA1213				(PF14792)
243233.MCA2498				(PF00839)
243233.MCA3049				(PF00215)
243233.MCA3043				(PF00215)
243233.MCA2974				PF02010
243233.MCA3021				(PF02823)
243233.MCA2776				(PF14721)
243233.MCA1094				(PF00215)
243233.MCA2224				PF02010
243233.MCA1557				(PF02823)
243233.MCA0458				(PF00839)
243233.MCA3005				(PF13020)
243233.MCA1506				(PF03092)

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