Effective results for Methylosarcina fibrata AML-C10 (refseq)
Summary
Number of putative secreted proteins: 218
- Predicted by T4SEpre: 141
- Predicted by EffectiveELD: 34 eukaryotic-like domains, contained in 107 proteins (27 high, 80 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, Type VI
Protein based results
Putative secreted proteins (weak evidence indicated by parentheses)
| Protein | EffectiveT3 | EffectiveCCBD | T4SEpre | EffectiveELD | Predotar |
|---|---|---|---|---|---|
| WP_020563336.1 | (PF01434) (PF06480) | ER | |||
| WP_020562824.1 | PF10282 PF02412 | ER | |||
| WP_020562823.1 | PF10282 PF02412 | ER | |||
| WP_020561718.1 | (PF01434) (PF06480) | ER | |||
| WP_020564945.1 | PF10282 PF02412 | ER | |||
| WP_020562829.1 | PF10282 PF02412 | ER | |||
| WP_051091868.1 | (PF01434) (PF06480) | ER | |||
| WP_020565799.1 | (PF01434) (PF06480) | ER | |||
| WP_020563713.1 | PF10282 PF02412 | ER | |||
| WP_020562725.1 | PF10282 PF02412 | ER | |||
| WP_020563201.1 | (PF02449) | (ER) | |||
| WP_020563785.1 | (PF02449) | (ER); (mitochondrial) | |||
| WP_026223313.1 | (PF05116) | (ER) | |||
| WP_020561776.1 | (PF02384) | (ER) | |||
| WP_020562451.1 | + | ER | |||
| WP_020562430.1 | PF10282 | ER | |||
| WP_020562966.1 | + | ER | |||
| WP_020563268.1 | PF10282 | ER | |||
| WP_020561921.1 | (PF13436) | ER | |||
| WP_020563990.1 | + | ER | |||
| WP_020563580.1 | + | ER | |||
| WP_020563732.1 | (PF13386) | ER; (ER) | |||
| WP_020564585.1 | PF10282 | ER | |||
| WP_026223465.1 | + | ER | |||
| WP_020565328.1 | + | (mitochondrial) | |||
| WP_020562909.1 | + | ER | |||
| WP_020562281.1 | + | ER | |||
| WP_026223424.1 | + | ER | |||
| WP_051091780.1 | (PF02449) | mitochondrial; (mitochondrial) | |||
| WP_020563673.1 | + | ER | |||
| WP_026223763.1 | PF10282 | ER | |||
| WP_051091800.1 | + | ER | |||
| WP_020562457.1 | (PF04367) | ER | |||
| WP_020562321.1 | + | (mitochondrial); plastid | |||
| WP_020565507.1 | (PF04367) | ER | |||
| WP_020564713.1 | PF15993 | ER | |||
| WP_020563640.1 | (PF05116) | (ER) | |||
| WP_020563611.1 | + | ER | |||
| WP_020565291.1 | + | ER | |||
| WP_020563818.1 | + | ER | |||
| WP_020565286.1 | + | ER | |||
| WP_020564784.1 | + | ER | |||
| WP_020565090.1 | (PF13386) | ER | |||
| WP_020565173.1 | (PF16095) | (mitochondrial); (plastid) | |||
| WP_020563589.1 | PF10282 | ER | |||
| WP_051091836.1 | + | ER | |||
| WP_020562596.1 | + | mitochondrial | |||
| WP_020564840.1 | (PF00137) | ER | |||
| WP_020561603.1 | PF02412 | ER | |||
| WP_020562539.1 | + | ER | |||
| WP_020565680.1 | (PF05023) | ER | |||
| WP_005368751.1 | + | ER | |||
| WP_020565802.1 | + | ER | |||
| WP_020565012.1 | (PF10142) | ER | |||
| WP_020563131.1 | + | (mitochondrial) | |||
| WP_020562951.1 | + | ER | |||
| WP_020561788.1 | (PF01807) | (mitochondrial) | |||
| WP_020564094.1 | (PF03901) | ER | |||
| WP_020563292.1 | (PF00137) | ER | |||
| WP_020564621.1 | (PF01434) | mitochondrial | |||
| WP_020564590.1 | + | ER | |||
| WP_026223245.1 | (PF13436) | ER | |||
| WP_026223255.1 | PF02412 | (ER); (mitochondrial) | |||
| WP_026223809.1 | (PF04367) | ER | |||
| WP_020563582.1 | + | ER | |||
| WP_020564944.1 | (PF02449) | (mitochondrial) | |||
| WP_020565758.1 | PF10282 | mitochondrial; (mitochondrial) | |||
| WP_020562722.1 | + | ER | |||
| WP_020565820.1 | PF10282 PF02412 | ||||
| WP_020561552.1 | (PF02384) | (mitochondrial) | |||
| WP_033412463.1 | + | (plastid) | |||
| WP_020562135.1 | PF06552 | (mitochondrial) | |||
| WP_020562939.1 | + | PF06739 | |||
| WP_020564311.1 | (PF16760) | (mitochondrial) | |||
| WP_020562854.1 | + | (PF02449) | |||
| WP_020563087.1 | + | (ER) | |||
| WP_020564148.1 | + | (ER) | |||
| WP_020564317.1 | (PF04851) | (mitochondrial) | |||
| WP_026223645.1 | (PF01434) (PF06480) | ||||
| WP_020563633.1 | PF10282 | (plastid) | |||
| WP_020561948.1 | + | (PF02384) | |||
| WP_020561752.1 | PF10282 PF02412 | ||||
| WP_020561651.1 | (PF02449) | (plastid) | |||
| WP_051091827.1 | PF10282 PF02412 | ||||
| WP_026223657.1 | (PF04851) | ||||
| WP_020564660.1 | + | ||||
| WP_020562314.1 | + | ||||
| WP_020565445.1 | + | ||||
| WP_020561590.1 | (PF01807) | ||||
| WP_020562133.1 | (PF05116) | ||||
| WP_020564696.1 | + | ||||
| WP_020561787.1 | (PF13148) | ||||
| WP_020562463.1 | + | ||||
| WP_020565623.1 | + | ||||
| WP_026223338.1 | (PF06080) | ||||
| WP_020562345.1 | + | ||||
| WP_020564310.1 | + | ||||
| WP_020563871.1 | + | ||||
| WP_020563157.1 | + | ||||
| WP_020564237.1 | + | ||||
| WP_020561395.1 | (PF01947) | ||||
| WP_020563900.1 | (PF12640) | ||||
| WP_020564177.1 | (PF00839) | ||||
| WP_020564165.1 | + | ||||
| WP_020565909.1 | + | ||||
| WP_020565888.1 | (PF04851) | ||||
| WP_020565595.1 | (PF01807) | ||||
| WP_020565194.1 | + | ||||
| WP_020564577.1 | (PF04851) | ||||
| WP_020562287.1 | + | ||||
| WP_020562715.1 | (PF04851) | ||||
| WP_020562717.1 | + | ||||
| WP_020562828.1 | (PF02449) | ||||
| WP_020564975.1 | (PF06080) | ||||
| WP_026223624.1 | + | ||||
| WP_020565164.1 | (PF02384) | ||||
| WP_020561843.1 | + | ||||
| WP_026223367.1 | + | ||||
| WP_020565418.1 | + | ||||
| WP_020565564.1 | (PF04851) | ||||
| WP_026223556.1 | + | ||||
| WP_020562831.1 | (PF03092) | ||||
| WP_020563167.1 | (PF04851) | ||||
| WP_020565410.1 | (PF13386) | ||||
| WP_020565721.1 | + | ||||
| WP_033411862.1 | + | ||||
| WP_020562418.1 | + | ||||
| WP_020564312.1 | + | ||||
| WP_020563171.1 | (PF02384) | ||||
| WP_020564072.1 | + | ||||
| WP_020562976.1 | + | ||||
| WP_020561913.1 | + | ||||
| WP_020563119.1 | + | ||||
| WP_020562998.1 | (PF13087) | ||||
| WP_026223451.1 | + | ||||
| WP_020562690.1 | + | ||||
| WP_020562031.1 | (PF13148) | ||||
| WP_020565156.1 | + | ||||
| WP_026223716.1 | + | ||||
| WP_020564362.1 | + | ||||
| WP_020564616.1 | (PF01807) | ||||
| WP_020561780.1 | + | ||||
| WP_020561440.1 | (PF13281) | ||||
| WP_026223564.1 | + | ||||
| WP_020561591.1 | (PF13148) | ||||
| WP_020565308.1 | (PF14721) | ||||
| WP_020563925.1 | PF16575 | ||||
| WP_020562350.1 | + | ||||
| WP_026223407.1 | + | ||||
| WP_020565497.1 | + | ||||
| WP_020562489.1 | + | ||||
| WP_051091816.1 | + | ||||
| WP_020562177.1 | PF02412 | ||||
| WP_020564298.1 | + | ||||
| WP_026223729.1 | (PF00137) | ||||
| WP_020563016.1 | + | ||||
| WP_020562704.1 | + | ||||
| WP_020564479.1 | + | ||||
| WP_026223725.1 | PF06739 | ||||
| WP_020564483.1 | + | ||||
| WP_026223674.1 | (PF00839) | ||||
| WP_020564893.1 | + | ||||
| WP_020564064.1 | (PF04851) | ||||
| WP_020562994.1 | (PF02384) | ||||
| WP_020564403.1 | (PF02384) | ||||
| WP_020564115.1 | + | ||||
| WP_020563883.1 | + | ||||
| WP_020563684.1 | + | ||||
| WP_026223308.1 | + | ||||
| WP_026223381.1 | (PF06884) | ||||
| WP_020562007.1 | + | ||||
| WP_020562075.1 | + | ||||
| WP_026223278.1 | + | ||||
| WP_020561920.1 | + | ||||
| WP_020565807.1 | (PF13148) | ||||
| WP_026223233.1 | (PF04851) | ||||
| WP_020563783.1 | (PF04851) | ||||
| WP_020565895.1 | + | ||||
| WP_020565161.1 | (PF04851) | ||||
| WP_020561893.1 | + | ||||
| WP_051091820.1 | + | ||||
| WP_020564418.1 | + | ||||
| WP_020564901.1 | + | ||||
| WP_020563296.1 | + | ||||
| WP_020563715.1 | (PF13386) | ||||
| WP_020565208.1 | + | ||||
| WP_020563702.1 | + | ||||
| WP_033412879.1 | + | ||||
| WP_051091788.1 | (PF02449) | ||||
| WP_020565309.1 | (PF04851) | ||||
| WP_020565055.1 | + | ||||
| WP_020563879.1 | (PF04930) | ||||
| WP_020563133.1 | + | ||||
| WP_020564693.1 | + | ||||
| WP_020564924.1 | PF04457 | ||||
| WP_020561965.1 | + | ||||
| WP_020563734.1 | + | ||||
| WP_020562636.1 | + | ||||
| WP_020561969.1 | + | ||||
| WP_020564829.1 | + | ||||
| WP_033411799.1 | PF06739 | ||||
| WP_020564102.1 | + | ||||
| WP_020564583.1 | (PF02384) | ||||
| WP_020565607.1 | + | ||||
| WP_020563485.1 | (PF02384) | ||||
| WP_020561634.1 | + | ||||
| WP_026223726.1 | PF06739 | ||||
| WP_020564439.1 | (PF02384) | ||||
| WP_020564291.1 | + | ||||
| WP_020562368.1 | + | ||||
| WP_020564775.1 | (PF13087) | ||||
| WP_026223659.1 | (PF13087) | ||||
| WP_020563550.1 | + | ||||
| WP_020564490.1 | + | ||||
| WP_020564763.1 | + | ||||
| WP_020561771.1 | (PF04851) | ||||
| WP_020562674.1 | (PF13087) | ||||
| WP_020563104.1 | + |
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 = 0.8 (8/10 KEGG proteins)
- Functional Type VI secretion system: YES (FDR = 7.7 %)
Estimated copy number = 2.375 (19/8 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
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=GENOTYPE
EMAIL=
==========================================================
Estimated copy number = 0.8 (8/10 KEGG proteins)
Estimated copy number = 2.375 (19/8 KEGG proteins)
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