Effective results for Campylobacter rectus RM3267 (eggnog40)

Summary

Number of putative secreted proteins: 34
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 9 eukaryotic-like domains, contained in 34 proteins (0 high, 34 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
553218.CAMRE0001_2331				(PF05935)	ER
553218.CAMRE0001_1301				(PF08238)	ER
553218.CAMRE0001_1648				(PF02600)	ER
553218.CAMRE0001_1678				(PF08238)	ER
553218.CAMRE0001_0211				(PF08238)	ER
553218.CAMRE0001_1724				(PF08238)	ER
553218.CAMRE0001_0737				(PF02600)	(ER)
553218.CAMRE0001_2127				(PF02600)	ER
553218.CAMRE0001_0726				(PF08238)	ER
553218.CAMRE0001_1157				(PF08238)	ER
553218.CAMRE0001_0391				(PF02600)	ER
553218.CAMRE0001_0579				(PF03054)	(ER)
553218.CAMRE0001_2151				(PF08238)	ER
553218.CAMRE0001_1387				(PF05154)	ER
553218.CAMRE0001_3236				(PF08238)	ER
553218.CAMRE0001_0753				(PF02460)	(ER); ER
553218.CAMRE0001_0247				(PF08238)	mitochondrial; (mitochondrial)
553218.CAMRE0001_2316				(PF05935)	ER
553218.CAMRE0001_2318				(PF02600)	ER
553218.CAMRE0001_2644				(PF08238)	ER
553218.CAMRE0001_0967				(PF00350)	(ER)
553218.CAMRE0001_0041				(PF02689)
553218.CAMRE0001_1479				(PF03054)
553218.CAMRE0001_0232				(PF13910)
553218.CAMRE0001_0968				(PF00350)
553218.CAMRE0001_1089				(PF03054)
553218.CAMRE0001_1505				(PF00350)
553218.CAMRE0001_1504				(PF00350)
553218.CAMRE0001_1506				(PF00350)
553218.CAMRE0001_2090				(PF08238)
553218.CAMRE0001_2304				(PF05154)
553218.CAMRE0001_2302				(PF05154)
553218.CAMRE0001_2303				(PF05154)
553218.CAMRE0001_2301				(PF05154)

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 = 0.375 (3/8 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=
==========================================================