Effective results for Sinorhizobium fredii NGR234 (eggnog40)

Summary

Number of putative secreted proteins: 396
- Predicted by EffectiveT3: 112 (high confidence), 165 (low confidence)
- Predicted by EffectiveCCBD: 15 within, 13 before, 19 behind expected region 25..70aa
- Predicted by T4SEpre: 70
- Predicted by EffectiveELD: 5 eukaryotic-like domains, contained in 20 proteins (1 high, 19 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): (Type III), (Type IV)

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

ProteinEffectiveT3EffectiveCCBDT4SEpreEffectiveELDPredotar
394.NGR_c34730++(mitochondrial); plastid
394.NGR_c02360++(mitochondrial); plastid
394.NGR_c18480+(ER)
394.NGR_c34280+mitochondrial
394.NGR_c27760+ER
394.NGR_c27570+(mitochondrial)
394.NGR_c04710+ER
394.NGR_c17830+ER
394.NGR_c27970+(ER)
394.NGR_c20430+(mitochondrial); mitochondrial
394.NGR_c19320+ER
394.NGR_c29180+(mitochondrial); plastid
394.NGR_c10300+ER
394.NGR_c27010+mitochondrial; plastid
394.NGR_c01830+ER
394.NGR_c01010(PF05544)mitochondrial
394.NGR_c24890+ER
394.NGR_c36060+(mitochondrial)
394.NGR_c03060+ER
394.NGR_c08340(PF02371)(mitochondrial)
394.NGR_c29710(>)ER
394.NGR_c27840+mitochondrial
394.NGR_c19100+ER
394.NGR_c08020(>)(ER)
394.NGR_c18220+ER
394.NGR_c33560+ER
394.NGR_c25820+ER
394.NGR_c01560+(mitochondrial)
394.NGR_c26840+(ER); plastid
394.NGR_c17610(PF05023)ER
394.NGR_c21690+ER
394.NGR_c02840+mitochondrial; plastid
394.NGR_c02320+(mitochondrial); plastid
394.NGR_c22180(>)ER
394.NGR_c13720+ER
394.NGR_c32080+ER
394.NGR_c26790+(mitochondrial)
394.NGR_c02950+(mitochondrial); plastid
394.NGR_c24870(>)ER; (ER)
394.NGR_c04500+ER
394.NGR_c02960+(mitochondrial)
394.NGR_c24310PF12763ER
394.NGR_c04970(PF02371)(mitochondrial)
394.NGR_c31640(+)+(plastid)
394.NGR_c05840+(plastid)
394.NGR_c36650(+)(mitochondrial)
394.NGR_c06150+(ER)
394.NGR_c23020+(plastid)
394.NGR_c06540+(plastid)
394.NGR_c32540+plastid
394.NGR_c20130(+)ER
394.NGR_c17390+(plastid)
394.NGR_c23990+(plastid)
394.NGR_c00800+(ER)
394.NGR_c08940+(mitochondrial); not used
394.NGR_c36730(+)mitochondrial
394.NGR_c02990+plastid
394.NGR_c32750(<)(mitochondrial)
394.NGR_c14120+(mitochondrial)
394.NGR_c01760+(plastid)
394.NGR_c17700+plastid
394.NGR_c02850(+)(mitochondrial); plastid
394.NGR_c16650(+)mitochondrial
394.NGR_c32730+(mitochondrial)
394.NGR_c28990+(plastid)
394.NGR_c34700(>)(mitochondrial)
394.NGR_c18630(+)ER
394.NGR_c08530(<)plastid
394.NGR_c31830(+)mitochondrial
394.NGR_c21350(+)(mitochondrial)
394.NGR_c09640(>)
394.NGR_c36360+
394.NGR_c31120+
394.NGR_c00420+
394.NGR_c12270+
394.NGR_c16990+
394.NGR_c33880+
394.NGR_c18660(+)+
394.NGR_c17110+
394.NGR_c28820+
394.NGR_c18800(<)
394.NGR_c35920(>)
394.NGR_c29890+
394.NGR_c07390+
394.NGR_c14650(>)
394.NGR_c05530(PF02371)
394.NGR_c18320(PF02371)
394.NGR_c06450+
394.NGR_c30770+
394.NGR_c16180(>)
394.NGR_c19780+
394.NGR_c18920+
394.NGR_c33450(>)
394.NGR_c29210+
394.NGR_c00920(+)(plastid)
394.NGR_c08480+
394.NGR_c22870(>)
394.NGR_c26140+
394.NGR_c24610+
394.NGR_c27140+
394.NGR_c27380(+)(plastid)
394.NGR_c09460+
394.NGR_c35050(PF02371)
394.NGR_c20280+
394.NGR_c30180(PF05544)
394.NGR_c21390+
394.NGR_c25140+
394.NGR_c34250+not used
394.NGR_c33440+
394.NGR_c18860+
394.NGR_c07350(+)(mitochondrial)
394.NGR_c01700+
394.NGR_c35660(>)
394.NGR_c36790+
394.NGR_c10200+
394.NGR_c30150(PF05544)
394.NGR_c18450+
394.NGR_c30080(>)
394.NGR_c14920+
394.NGR_c26550+
394.NGR_c30380+
394.NGR_c19470(PF02371)
394.NGR_c27600+
394.NGR_c00260+
394.NGR_c15440+
394.NGR_c00640+
394.NGR_c06950+
394.NGR_c13320(<)
394.NGR_c10850+
394.NGR_c10690+
394.NGR_c30090+
394.NGR_c14950+
394.NGR_c22240+
394.NGR_c33550+
394.NGR_c22390+
394.NGR_c04130(<)
394.NGR_c20890+
394.NGR_c15940+
394.NGR_c15160+
394.NGR_c10990(+)(plastid)
394.NGR_c35080+
394.NGR_c17410+
394.NGR_c33960+
394.NGR_c36030+
394.NGR_c16320+
394.NGR_c35880(<)
394.NGR_c15550+
394.NGR_c01970+
394.NGR_c29460(PF02371)
394.NGR_c34100+
394.NGR_c33800+
394.NGR_c16680(PF01442)
394.NGR_c31880(<)
394.NGR_c03050+
394.NGR_c02050+
394.NGR_c32910+
394.NGR_c23170+
394.NGR_c12130+
394.NGR_c15800+
394.NGR_c01740+
394.NGR_c17430(>)
394.NGR_c05930+
394.NGR_c17980+
394.NGR_c13350(>)
394.NGR_c12550+
394.NGR_c17500+
394.NGR_c33160+
394.NGR_c26050+
394.NGR_c07270+
394.NGR_c18090(+)(plastid)
394.NGR_c31920+
394.NGR_c08950+
394.NGR_c18550(<)
394.NGR_c21480+
394.NGR_c13160+
394.NGR_c31450(PF02371)
394.NGR_c34340(<)
394.NGR_c34580(PF02371)
394.NGR_c20530(PF05544)
394.NGR_c16060(<)
394.NGR_c12540+
394.NGR_c32400+
394.NGR_c24350+
394.NGR_c04790+
394.NGR_c23080+
394.NGR_c31530(PF02371)
394.NGR_c26310(+)(plastid)
394.NGR_c10400+
394.NGR_c10150(>)
394.NGR_c30460+
394.NGR_c21010+
394.NGR_c35170+
394.NGR_c28690+
394.NGR_c32520(+)(plastid)
394.NGR_c30870+
394.NGR_c23360(+)(plastid)
394.NGR_c36520+
394.NGR_c10140(+)(plastid)
394.NGR_c13140+
394.NGR_c13540+
394.NGR_c22990(+)(mitochondrial)
394.NGR_c12700(PF02371)
394.NGR_c10560(>)
394.NGR_c17060+
394.NGR_c18900+
394.NGR_c34380+
394.NGR_c25260+
394.NGR_c02940(+)(mitochondrial)
394.NGR_c17710+
394.NGR_c22880+
394.NGR_c06190+
394.NGR_c29800(>)
394.NGR_c29150+
394.NGR_c26230+
394.NGR_c22400+
394.NGR_c26420+
394.NGR_c00300+
394.NGR_c10350+
394.NGR_c01320+
394.NGR_c10910+
394.NGR_c10820+
394.NGR_c36450(<)
394.NGR_c28520(+)+
394.NGR_c34040+
394.NGR_c03200+
394.NGR_c02620+
394.NGR_c21680(>)
394.NGR_c26940+
394.NGR_c11760+
394.NGR_c29810+
394.NGR_c23120+
394.NGR_c11360+
394.NGR_c20480+
394.NGR_c10290+
394.NGR_c05360(PF02371)
394.NGR_c13120(PF02371)
394.NGR_c21560+
394.NGR_c35230+
394.NGR_c36440+
394.NGR_c17840(+)(plastid)
394.NGR_c11420+
394.NGR_c08610+
394.NGR_c11370+
394.NGR_c03210+
394.NGR_c00980+
394.NGR_c11240+
394.NGR_c15110+
394.NGR_c35750+
394.NGR_c18830+
394.NGR_c32670+
394.NGR_c02570(<)
394.NGR_c32900+
394.NGR_c35140+
394.NGR_c36020(<)
394.NGR_c36560(+)
394.NGR_c01110(+)
394.NGR_c17200(+)
394.NGR_c02740(+)
394.NGR_c26280(+)
394.NGR_c09650(+)
394.NGR_c05020(+)
394.NGR_c04950(+)
394.NGR_c20720(+)
394.NGR_c08030(+)
394.NGR_c21410(+)
394.NGR_c27710(+)
394.NGR_c12420(+)
394.NGR_c04140(+)
394.NGR_c08710(+)
394.NGR_c04040(+)
394.NGR_c27430(+)
394.NGR_c30680(+)
394.NGR_c10010(+)
394.NGR_c23800(+)
394.NGR_c13470(+)
394.NGR_c13300(+)
394.NGR_c33660(+)
394.NGR_c12320(+)
394.NGR_c11200(+)
394.NGR_c26220(+)
394.NGR_c11330(+)
394.NGR_c03250(+)
394.NGR_c05280(+)
394.NGR_c24130(+)
394.NGR_c00120(+)
394.NGR_c05990(+)
394.NGR_c31370(+)
394.NGR_c10510(+)
394.NGR_c16300(+)
394.NGR_c02420(+)
394.NGR_c22920(+)
394.NGR_c09190(+)
394.NGR_c14550(+)
394.NGR_c01350(+)
394.NGR_c19860(+)not used
394.NGR_c27940(+)
394.NGR_c21910(+)not used
394.NGR_c18420(+)
394.NGR_c13250(+)
394.NGR_c23690(+)
394.NGR_c22710(+)
394.NGR_c00810(+)
394.NGR_c32980(+)
394.NGR_c03850(+)
394.NGR_c21870(+)
394.NGR_c28720(+)
394.NGR_c30220(+)
394.NGR_c25110(+)
394.NGR_c17820(+)
394.NGR_c29380(+)
394.NGR_c11490(+)
394.NGR_c32780(+)
394.NGR_c02400(+)
394.NGR_c11810(+)
394.NGR_c14390(+)
394.NGR_c03620(+)
394.NGR_c34680(+)
394.NGR_c24360(+)
394.NGR_c20640(+)
394.NGR_c01750(+)
394.NGR_c14970(+)
394.NGR_c16040(+)
394.NGR_c36870(+)
394.NGR_c04110(+)
394.NGR_c04840(+)
394.NGR_c01180(+)
394.NGR_c20180(+)
394.NGR_c20320(+)
394.NGR_c19940(+)
394.NGR_c17050(+)
394.NGR_c27880(+)
394.NGR_c16870(+)
394.NGR_c16670(+)
394.NGR_c29610(+)
394.NGR_c03480(+)
394.NGR_c05780(+)
394.NGR_c00170(+)
394.NGR_c35560(+)
394.NGR_c20190(+)
394.NGR_c00680(+)
394.NGR_c06200(+)
394.NGR_c13010(+)
394.NGR_c13380(+)
394.NGR_c16880(+)
394.NGR_c17600(+)
394.NGR_c34900(+)
394.NGR_c01300(+)
394.NGR_c01090(+)
394.NGR_c28270(+)
394.NGR_c05910(+)
394.NGR_c22560(+)
394.NGR_c33720(+)
394.NGR_c26780(+)
394.NGR_c07670(+)
394.NGR_c06530(+)
394.NGR_c28460(+)
394.NGR_c12140(+)
394.NGR_c18970(+)
394.NGR_c11840(+)
394.NGR_c11930(+)
394.NGR_c30860(+)
394.NGR_c04400(+)
394.NGR_c03940(+)
394.NGR_c05200(+)
394.NGR_c30240(+)
394.NGR_c13150(+)
394.NGR_c17490(+)
394.NGR_c22540(+)
394.NGR_c18960(+)
394.NGR_c32380(+)
394.NGR_c11380(+)
394.NGR_c04980(+)
394.NGR_c24010(+)
394.NGR_c30650(+)
394.NGR_c20150(+)
394.NGR_c06800(+)
394.NGR_c05960(+)
394.NGR_c12720(+)
394.NGR_c06240(+)
394.NGR_c12610(+)
394.NGR_c34050(+)
394.NGR_c04770(+)
394.NGR_c20160(+)
394.NGR_c21570(+)
394.NGR_c25560(+)
394.NGR_c17810(+)
394.NGR_c09700(+)
394.NGR_c06580(+)
394.NGR_c28300(+)
394.NGR_c28940(+)
394.NGR_c29780(+)
394.NGR_c36310(+)
394.NGR_c28160(+)
394.NGR_c16720(+)
394.NGR_c26180(+)
394.NGR_c37010(+)

Detailed merged results for each protein sequence

Individual results for each protein sequence

Genome based results

Summary

  • Gram negative: YES (FDR = 0.5 %)
  • Functional Type III secretion system: YES (FDR = 12.5 %)
    Estimated copy number = 0.3 (3/10 KEGG proteins)
  • Functional Type IV secretion system: YES (FDR = 7.2 %)
    Estimated copy number = 0.0 (0/10 KEGG proteins)
  • Functional Type VI secretion system: NO (FDR = 7.7 %)

Individual results for each secretion system

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