Effective results for Campylobacter concisus 13826 (eggnog40)
Summary
Number of putative secreted proteins: 18
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 10 eukaryotic-like domains, contained in 18 proteins (3 high, 15 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 |
---|---|---|---|---|---|
360104.CCC13826_0231 | (PF05935) | ER | |||
360104.CCC13826_0460 | PF02516 | ER | |||
360104.CCC13826_1706 | (PF00209) | ER; (ER) | |||
360104.CCC13826_0452 | PF02516 | ER | |||
360104.CCC13826_1504 | (PF00209) | ER; (ER) | |||
360104.CCC13826_0901 | (PF05935) | ER | |||
360104.CCC13826_2200 | (PF02460) | (ER); (mitochondrial) | |||
360104.CCC13826_1611 | (PF00209) | ER | |||
360104.CCC13826_1505 | (PF00209) | (ER) | |||
360104.CCC13826_1503 | (PF00209) | (ER) | |||
360104.CCC13826_0535 | (PF02475) | ||||
360104.CCC13826_1075 | (PF02689) | ||||
360104.CCC13826_0801 | (PF03054) | ||||
360104.CCC13826_1047 | (PF15588) | ||||
360104.CCC13826_0950 | (PF11074) | ||||
360104.CCC13826_1016 | (PF03054) | ||||
360104.CCC13826_0947 | PF07453 | ||||
360104.CCC13826_1555 | (PF03054) |
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=
==========================================================
Estimated copy number = 0.375 (3/8 KEGG proteins)