Effective results for Orientia tsutsugamushi str. Boryong (eggnog40)
Summary
Number of putative secreted proteins: 135
- Predicted by T4SEpre: 92
- Predicted by EffectiveELD: 11 eukaryotic-like domains, contained in 71 proteins (45 high, 26 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): Type IV
Protein based results
Putative secreted proteins (weak evidence indicated by parentheses)
| Protein | EffectiveT3 | EffectiveCCBD | T4SEpre | EffectiveELD | Predotar |
|---|---|---|---|---|---|
| 357244.OTBS_1980 | + | PF13857 PF13637 (PF12796) | |||
| 357244.OTBS_0486 | PF13857 PF13637 | mitochondrial | |||
| 357244.OTBS_0290 | (PF07719) | ER | |||
| 357244.OTBS_2086 | PF13637 | (mitochondrial) | |||
| 357244.OTBS_0883 | + | ER | |||
| 357244.OTBS_0547 | PF03219 | (ER) | |||
| 357244.OTBS_0835 | + | ER | |||
| 357244.OTBS_0397 | + | (mitochondrial) | |||
| 357244.OTBS_0269 | + | (ER) | |||
| 357244.OTBS_0065 | + | ER | |||
| 357244.OTBS_1335 | + | ER | |||
| 357244.OTBS_1267 | + | ER | |||
| 357244.OTBS_0933 | + | (PF00023) (PF12796) | |||
| 357244.OTBS_0939 | + | ER | |||
| 357244.OTBS_2025 | + | ER | |||
| 357244.OTBS_0018 | + | ER | |||
| 357244.OTBS_1636 | PF03219 | ER | |||
| 357244.OTBS_1258 | + | ER | |||
| 357244.OTBS_1509 | + | ER | |||
| 357244.OTBS_0476 | PF13857 (PF12796) | (mitochondrial) | |||
| 357244.OTBS_1952 | + | mitochondrial; (mitochondrial) | |||
| 357244.OTBS_1729 | + | ER | |||
| 357244.OTBS_2077 | + | ER | |||
| 357244.OTBS_1172 | + | (PF12796) | (ER) | ||
| 357244.OTBS_0614 | + | PF13857 (PF12796) | |||
| 357244.OTBS_1869 | + | ER | |||
| 357244.OTBS_0106 | (PF07719) | (mitochondrial); (ER) | |||
| 357244.OTBS_0530 | + | ER | |||
| 357244.OTBS_0700 | + | (mitochondrial) | |||
| 357244.OTBS_1753 | PF13857 (PF12796) | (mitochondrial) | |||
| 357244.OTBS_1755 | (PF00023) PF13637 (PF12796) | ||||
| 357244.OTBS_1673 | + | ER | |||
| 357244.OTBS_1521 | (PF12796) | (mitochondrial) | |||
| 357244.OTBS_0034 | + | ER | |||
| 357244.OTBS_1035 | PF03219 | (mitochondrial) | |||
| 357244.OTBS_1133 | + | (PF12796) (PF00023) | |||
| 357244.OTBS_1492 | + | ER | |||
| 357244.OTBS_1896 | + | ER | |||
| 357244.OTBS_1992 | + | ER | |||
| 357244.OTBS_1205 | + | ER | |||
| 357244.OTBS_1438 | + | ER | |||
| 357244.OTBS_0312 | PF03219 | ER | |||
| 357244.OTBS_1090 | + | ER | |||
| 357244.OTBS_1151 | + | ER | |||
| 357244.OTBS_0989 | + | ER | |||
| 357244.OTBS_0999 | + | (PF02902) | |||
| 357244.OTBS_1052 | PF13857 (PF12796) | ||||
| 357244.OTBS_0691 | PF13637 (PF00023) | ||||
| 357244.OTBS_0729 | + | PF13328 | |||
| 357244.OTBS_0098 | PF13857 (PF12796) | ||||
| 357244.OTBS_2178 | PF13637 (PF12796) | ||||
| 357244.OTBS_0071 | (PF12796) (PF00023) | ||||
| 357244.OTBS_0758 | PF13637 | (mitochondrial) | |||
| 357244.OTBS_0920 | + | (plastid) | |||
| 357244.OTBS_0585 | + | (ER) | |||
| 357244.OTBS_2055 | + | PF13328 | |||
| 357244.OTBS_0128 | + | ||||
| 357244.OTBS_0080 | + | ||||
| 357244.OTBS_0084 | (PF12796) | ||||
| 357244.OTBS_0902 | PF13637 | not used | |||
| 357244.OTBS_0681 | + | ||||
| 357244.OTBS_0298 | PF13857 | not used | |||
| 357244.OTBS_0295 | + | ||||
| 357244.OTBS_0871 | + | ||||
| 357244.OTBS_2085 | PF13328 | ||||
| 357244.OTBS_1051 | + | ||||
| 357244.OTBS_1835 | + | ||||
| 357244.OTBS_0246 | (PF12796) | ||||
| 357244.OTBS_1679 | (PF12796) | ||||
| 357244.OTBS_1603 | + | ||||
| 357244.OTBS_1236 | (PF03959) | ||||
| 357244.OTBS_0632 | (PF07719) | ||||
| 357244.OTBS_0399 | + | ||||
| 357244.OTBS_0598 | + | ||||
| 357244.OTBS_0461 | (PF12796) | ||||
| 357244.OTBS_0089 | PF13328 | ||||
| 357244.OTBS_2064 | (PF07719) | ||||
| 357244.OTBS_1081 | (PF07719) | ||||
| 357244.OTBS_1161 | (PF07719) | ||||
| 357244.OTBS_0849 | PF08373 | ||||
| 357244.OTBS_1342 | PF08373 | ||||
| 357244.OTBS_0161 | + | ||||
| 357244.OTBS_0112 | (PF07719) | ||||
| 357244.OTBS_0483 | PF13328 | ||||
| 357244.OTBS_1744 | + | ||||
| 357244.OTBS_1745 | PF13328 | ||||
| 357244.OTBS_0340 | + | ||||
| 357244.OTBS_2093 | (PF12796) | ||||
| 357244.OTBS_0800 | PF13328 | ||||
| 357244.OTBS_0790 | + | ||||
| 357244.OTBS_0475 | PF13328 | ||||
| 357244.OTBS_1074 | PF13328 | ||||
| 357244.OTBS_1175 | PF13328 | ||||
| 357244.OTBS_1174 | PF13857 | ||||
| 357244.OTBS_1218 | + | ||||
| 357244.OTBS_0755 | PF13328 | ||||
| 357244.OTBS_0613 | PF13328 | ||||
| 357244.OTBS_0618 | + | ||||
| 357244.OTBS_0852 | + | ||||
| 357244.OTBS_0858 | + | ||||
| 357244.OTBS_1187 | (PF07719) | ||||
| 357244.OTBS_1452 | PF13328 | ||||
| 357244.OTBS_1322 | + | ||||
| 357244.OTBS_1592 | PF13328 | ||||
| 357244.OTBS_0787 | + | ||||
| 357244.OTBS_0816 | + | ||||
| 357244.OTBS_1241 | (PF12796) | ||||
| 357244.OTBS_1395 | + | ||||
| 357244.OTBS_0912 | (PF12796) | ||||
| 357244.OTBS_0919 | PF13328 | ||||
| 357244.OTBS_0704 | + | ||||
| 357244.OTBS_0962 | PF13328 | ||||
| 357244.OTBS_2009 | PF13328 | ||||
| 357244.OTBS_2004 | + | ||||
| 357244.OTBS_0040 | PF13328 | ||||
| 357244.OTBS_1237 | + | ||||
| 357244.OTBS_1614 | + | ||||
| 357244.OTBS_1936 | PF13328 | ||||
| 357244.OTBS_0623 | PF13328 | ||||
| 357244.OTBS_0820 | PF13328 | ||||
| 357244.OTBS_1195 | (PF12796) | ||||
| 357244.OTBS_0135 | + | ||||
| 357244.OTBS_2014 | + | ||||
| 357244.OTBS_0959 | (PF12796) | ||||
| 357244.OTBS_1659 | PF13328 | ||||
| 357244.OTBS_1433 | + | ||||
| 357244.OTBS_2052 | (PF14441) | ||||
| 357244.OTBS_2051 | (PF12796) | ||||
| 357244.OTBS_0313 | PF03219 | ||||
| 357244.OTBS_0252 | + | ||||
| 357244.OTBS_1559 | + | ||||
| 357244.OTBS_1655 | + | ||||
| 357244.OTBS_1974 | PF13328 | ||||
| 357244.OTBS_1802 | + | ||||
| 357244.OTBS_0189 | + |
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
- T4SEpre bpbAac predictions (T4SEpre_bpbAac_FinalResult.csv)
- T4SEpre psAac predictions (T4SEpre_psAac_FinalResult.csv)
- 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: YES (FDR = 7.2 %)
Estimated copy number = 2.3 (23/10 KEGG proteins)
- 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=
==========================================================
Estimated copy number = 2.3 (23/10 KEGG proteins)
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