Effective results for Salmonella enterica subsp. enterica serovar Typhi str. CT18 (eggnog40)

Summary

Number of putative secreted proteins: 721
- Predicted by EffectiveT3: 199 (high confidence), 276 (low confidence)
- Predicted by EffectiveCCBD: 31 within, 26 before, 46 behind expected region 25..70aa
- Predicted by T4SEpre: 125
- Predicted by EffectiveELD: 23 eukaryotic-like domains, contained in 68 proteins (14 high, 54 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), Type VI

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

ProteinEffectiveT3EffectiveCCBDT4SEpreEffectiveELDPredotar
220341.HCM1.15c.1N+ER
220341.HCM1.70(>)(mitochondrial)
220341.STY4858+(mitochondrial)
220341.STY4104+(ER)
220341.STY0248(>)ER
220341.STY0794+ER
220341.STY2406(>)(mitochondrial)
220341.STY3317(<)(ER)
220341.STY3313(>)ER
220341.STY0383+ER
220341.STY4824+(mitochondrial)
220341.STY4135+ER
220341.STY4480(PF03918)(mitochondrial)
220341.STY0671(>)mitochondrial; (mitochondrial)
220341.STY3178+ER
220341.STY2301(>)(mitochondrial)
220341.STY3529(>)ER
220341.STY3967+(mitochondrial)
220341.STY1334(<)ER; (ER)
220341.HCM2.0070c+(mitochondrial); plastid
220341.STY4837(PF00345)ER
220341.STY1800+ER; (ER)
220341.STY4943(PF00345)ER
220341.STY0335(PF00345)ER
220341.STY2680+ER
220341.STY3087(PF00345)ER
220341.STY1479+(mitochondrial)
220341.STY0274+mitochondrial
220341.STY2430(>)(PF03313) (PF03315)
220341.STY1905+(ER)
220341.STY3919(PF00345)ER
220341.STY2748+ER
220341.STY2450+(ER); ER
220341.STY4582+ER
220341.STY0206(PF00345)ER
220341.STY4563+(ER)
220341.HCM1.75(<)ER
220341.STY3422(PF03313) (PF03315)(plastid)
220341.STY2353+ER
220341.STY1882+ER; (ER)
220341.STY0464+(mitochondrial)
220341.STY1587+ER
220341.STY4176+ER; (ER)
220341.STY0509(>)ER
220341.STY0180+ER
220341.STY0303+ER
220341.STY1590+ER
220341.STY4234+ER
220341.STY3579PF05935ER
220341.STY0408(>)ER
220341.STY2482+(ER)
220341.STY3175(PF00345)ER
220341.STY1437(>)ER
220341.STY3966(PF03918)ER
220341.STY3964(PF16327)ER
220341.STY1949+ER
220341.STY4539+ER
220341.STY2705(PF10662)(mitochondrial)
220341.STY1975(>)ER
220341.STY2380(PF00345)ER
220341.STY4029+ER
220341.HCM1.176+(ER)
220341.STY1043+ER
220341.STY1047+(mitochondrial); plastid
220341.HCM1.165c(PF00186)mitochondrial
220341.STY1552+(mitochondrial)
220341.STY1956(PF03313) (PF03315)(plastid)
220341.STY4256(>)ER
220341.STY2040+(mitochondrial); plastid
220341.STY3149(<)(ER)
220341.STY1384+ER
220341.STY0380+ER
220341.STY0387+(mitochondrial); (plastid)
220341.STY3703+(mitochondrial); (plastid)
220341.STY4469(>)mitochondrial
220341.STY4081+(ER)
220341.STY2295+(mitochondrial)
220341.STY4414(>)(mitochondrial)
220341.STY1719+ER
220341.STY1570(>)ER
220341.STY0372(PF00345)ER
220341.STY0378+ER
220341.STY4721+ER
220341.STY4479(PF16327)ER
220341.STY3952(<)ER
220341.STY3007++(plastid)
220341.STY0025(PF00345)ER
220341.STY0592(PF00345)ER
220341.STY2261(PF10662)mitochondrial
220341.STY4577+ER
220341.STY1502(PF06884)ER
220341.STY4066+(mitochondrial)
220341.STY1508+ER
220341.STY1168+ER
220341.STY0369(PF00345)ER
220341.STY3585+ER
220341.STY0747(>)ER
220341.STY0032(PF00345)ER
220341.STY3471+ER
220341.STY4609+(mitochondrial)
220341.STY1504(>)(mitochondrial)
220341.STY1518(PF10142)ER
220341.STY4453(>)ER
220341.STY3110(PF03313) (PF03315)(plastid)
220341.STY2881+(mitochondrial); (plastid)
220341.STY0201+ER
220341.STY2086++(plastid)
220341.STY3878+(mitochondrial)
220341.STY0345(PF00345)ER
220341.STY4297(>)ER
220341.STY0107(<)ER
220341.STY2475(PF16327)ER
220341.STY2473(PF03918)ER
220341.STY4339+(mitochondrial); mitochondrial
220341.STY4853+(PF13391)
220341.STY4850+(plastid)
220341.STY1536+plastid
220341.STY4100(+)(>)(plastid)
220341.STY4922+(mitochondrial)
220341.STY4928(>)(mitochondrial)
220341.HCM2.0046c(>)(mitochondrial)
220341.STY3860(+)(ER)
220341.HCM1.270++
220341.STY1783(+)ER; (ER)
220341.STY4827(+)mitochondrial
220341.STY4557++
220341.STY2127+plastid
220341.STY2936+(>)
220341.STY0046+PF05935
220341.STY4266+mitochondrial
220341.STY4809+(ER)
220341.STY4579(+)ER
220341.STY2753+(mitochondrial)
220341.STY4039(<)+
220341.STY2597+(mitochondrial)
220341.STY2177+(plastid)
220341.STY4701+(mitochondrial)
220341.STY4515+(>)
220341.STY3365(+)mitochondrial; (mitochondrial)
220341.STY2167+plastid
220341.STY2169++
220341.STY1715+(>)
220341.STY4198(+)(mitochondrial)
220341.STY2487(+)(mitochondrial)
220341.STY1722++
220341.HCM1.96PF08536(plastid)
220341.STY2838(+)ER
220341.STY3152(+)(ER)
220341.STY4381+(mitochondrial)
220341.STY0811++
220341.STY0579(+)(mitochondrial)
220341.STY0395+(plastid)
220341.STY4738++
220341.STY1964+(plastid)
220341.STY3016+(mitochondrial)
220341.STY1115(+)(mitochondrial)
220341.STY2486++
220341.STY1401+(ER)
220341.STY4720++
220341.STY3001(+)(PF00102)(mitochondrial)
220341.HCM1.58c++
220341.STY4439(+)(ER)
220341.STY3858+(mitochondrial)
220341.STY0749(>)(mitochondrial)
220341.STY0039+PF05935
220341.HCM1.136+(plastid)
220341.STY4333+(>)
220341.STY1209(>)(mitochondrial)
220341.STY2466(+)(ER)
220341.STY2860++
220341.STY1182(+)ER; (ER)
220341.STY1692+(mitochondrial)
220341.STY2988+(<)
220341.STY4711(+)mitochondrial; (mitochondrial)
220341.STY4112+(mitochondrial)
220341.STY1792(+)mitochondrial; (mitochondrial)
220341.STY2256+
220341.STY2255+
220341.STY3306+
220341.STY2258(>)
220341.STY3879+
220341.HCM1.114+
220341.HCM1.178ac+
220341.STY3859+
220341.HCM1.109+
220341.STY0932(+)(plastid)
220341.STY1351+
220341.HCM1.238cPF03400
220341.STY1223+
220341.STY1222+
220341.STY1229+
220341.STY3912(<)
220341.STY3685(<)
220341.STY4921+
220341.STY2408+
220341.STY4327+
220341.STY3468(<)
220341.STY0467(+)(mitochondrial)
220341.STY0462+
220341.STY0947+
220341.STY2222(>)
220341.STY3310(PF03738)
220341.STY2456(+)(mitochondrial)
220341.STY3100+
220341.HCM1.273+
220341.STY1344+
220341.STY1036+
220341.STY1323(PF10685)
220341.STY0324+
220341.STY4828+
220341.STY0818+
220341.STY4825+
220341.STY4136+
220341.HCM1.136aPF03400
220341.STY4626(PF05929)
220341.STY4623+
220341.STY4628+
220341.HCM1.239c+
220341.STY0782+
220341.STY4551+not used
220341.STY3673+
220341.STY0078+
220341.STY3679(+)+
220341.STY2419PF03400
220341.STY4313(PF00834)
220341.STY3780+
220341.STY3069+
220341.STY3097(PF02595)
220341.STY2789(>)
220341.STY1226a+
220341.STY2541+
220341.STY3006+
220341.HCM1.31c+
220341.HCM1.262+
220341.STY1793+
220341.STY1249+
220341.STY0319+
220341.HCM1.102+
220341.STY0260(>)
220341.STY4637+
220341.STY4125PF03400
220341.STY4124+
220341.STY2420+
220341.STY2429+
220341.STY3796+
220341.STY0446(>)
220341.STY2682(>)
220341.STY2756+
220341.STY3332(>)
220341.STY4013+
220341.STY2689(+)+
220341.STY0808+
220341.STY1019(+)(mitochondrial)
220341.STY0480+
220341.STY1655(+)(<)
220341.HCM1.32c(>)
220341.STY1477+
220341.STY1470+
220341.STY0870(+)(mitochondrial)
220341.STY0617+
220341.HCM1.04cPF03400
220341.STY0050+
220341.STY0057+
220341.STY3653+
220341.STY3432+
220341.STY3501+
220341.STY2693(>)
220341.STY0400+
220341.STY4662(<)
220341.STY2100(+)(plastid)
220341.HCM1.87+
220341.STY1487(<)
220341.STY1648+
220341.STY2912+
220341.STY1215+
220341.STY4812+
220341.STY4819+
220341.STY3642(>)
220341.HCM1.77+
220341.HCM1.74+
220341.STY3429(PF02595)
220341.STY0668+
220341.HCM1.205c+
220341.STY2352+
220341.STY3251+
220341.STY0664+
220341.STY3514+
220341.STY4219+
220341.STY2596+
220341.STY2179+
220341.HCM2.0106c+
220341.HCM2.0126c+
220341.STY0098+
220341.HCM1.183+
220341.STY0985(+)+
220341.STY0215+
220341.STY4861+
220341.HCM1.204cPF03400
220341.STY4518(<)
220341.STY1854+
220341.STY1855(+)plastid
220341.STY1850+
220341.STY4170+
220341.STY4173+
220341.STY0501+
220341.STY4194+
220341.STY2345+
220341.STY2131+
220341.HCM1.64+
220341.STY2766+
220341.STY3366(PF03738)
220341.STY3163+
220341.HCM1.192+
220341.STY1447(PF00834)
220341.STY4199+
220341.STY1062+
220341.STY1289(<)
220341.STY0081+
220341.STY1849+
220341.HCM1.52+
220341.HCM2.0051c+
220341.HCM2.0059c+
220341.STY3197+
220341.STY0402(<)
220341.STY1935(<)
220341.STY1933+
220341.STY2804+
220341.STY3370PF05935
220341.STY3565+
220341.HCM2.0068c+
220341.STY4793+
220341.STY3592+
220341.STY1720+
220341.STY0237+
220341.STY1548(PF10685)
220341.HCM1.284c+
220341.STY1360+
220341.STY0527+
220341.HCM1.45+
220341.STY3760+
220341.STY3790(PF00834)
220341.STY0099+
220341.STY2367+
220341.STY0701+
220341.STY2495+
220341.STY2494(+)(ER)
220341.STY2030+
220341.HCM1.175(PF13391)
220341.HCM1.177(PF13391)
220341.STY1602+
220341.HCM1.278c+
220341.STY2920+
220341.STY1045+
220341.STY1049(<)
220341.STY0482+
220341.STY0483+
220341.STY4079(PF06176)
220341.STY3976+
220341.STY3979(>)
220341.STY0399+
220341.STY4746+
220341.STY4417+
220341.STY4528+
220341.STY4521+
220341.STY2829(>)
220341.STY3550+
220341.STY0779+
220341.STY4312+
220341.STY2730(PF02595)
220341.STY3395+
220341.STY3151(+)+
220341.STY2602+
220341.STY0955+
220341.STY2048+
220341.STY4410+
220341.HCM1.141+
220341.STY0225+
220341.STY1632+
220341.STY0550+
220341.STY1381+
220341.STY1703(>)
220341.STY1092+
220341.STY1141+
220341.STY1413+
220341.STY4649+
220341.STY1893+
220341.STY4732(PF03738)
220341.STY4733+
220341.STY4881(+)+
220341.STY4466+
220341.STY0165+
220341.STY0164(+)(<)
220341.STY4261(>)
220341.STY4005+
220341.HCM1.93+
220341.STY3676(PF05929)
220341.STY2862+
220341.STY1628+
220341.STY2986a+
220341.STY2665+
220341.HCM1.02c+
220341.STY1395(+)(mitochondrial)
220341.STY1716+
220341.STY1712+
220341.STY1083+
220341.STY3519+
220341.STY1217+
220341.STY1400+
220341.STY1156(PF10685)not used
220341.STY4657PF03400
220341.STY0573(PF02595)
220341.STY4658+
220341.STY4473+
220341.STY1979(+)(plastid)
220341.STY0280+
220341.STY0285+
220341.STY3005+
220341.STY3009(PF07720)
220341.STY3418(PF03313)
220341.STY3480+
220341.STY2283+
220341.STY0627+
220341.STY2848(PF14328)
220341.HCM2.0117c(PF00186)
220341.HCM1.126+
220341.HCM1.124+
220341.STY0836(<)
220341.STY1769+
220341.STY2300+
220341.STY3526+
220341.STY1164+
220341.STY0367(>)
220341.STY0366(>)
220341.STY0535+
220341.STY0102(PF00186)
220341.STY0104+
220341.STY0036(>)
220341.STY0585+
220341.STY4917+
220341.STY2984+
220341.STY3109+
220341.STY4544+
220341.STY2186+
220341.STY2182+
220341.STY2071PF04181not used
220341.STY2077+
220341.STY2074+
220341.STY2277+
220341.HCM2.0109c+
220341.HCM2.0096+
220341.HCM1.138+
220341.HCM1.139PF03400
220341.STY4432+
220341.STY0404+
220341.STY0898+
220341.STY0915+
220341.STY1179(+)(ER)
220341.STY1191+
220341.STY0824+
220341.STY3738(<)
220341.STY0157(<)
220341.STY3830(<)
220341.STY4908+
220341.STY2467(+)(plastid)
220341.STY3115+
220341.HCM1.05c+
220341.HCM1.180c(+)plastid
220341.STY2880+
220341.STY1218+
220341.STY1211+
220341.STY2241+
220341.STY2246+
220341.STY3688+
220341.HCM1.107+
220341.STY0205(+)(plastid)
220341.STY2879+
220341.STY1981+
220341.STY1529(+)(ER)
220341.STY3630+
220341.STY0341(<)
220341.STY4600+
220341.STY0017+
220341.STY3475+
220341.STY3020+
220341.HCM2.0085c+
220341.STY3307(+)
220341.HCM1.118(+)
220341.STY4288(+)
220341.STY0936(+)
220341.STY0933(+)
220341.STY3032(+)
220341.STY4046(+)
220341.STY1530(+)
220341.STY4109(+)
220341.STY0489(+)
220341.STY0243(+)
220341.STY4583(+)
220341.STY4585(+)
220341.STY3911(+)
220341.STY4612(+)
220341.STY4615(+)
220341.STY1828(+)
220341.STY4927(+)
220341.STY4925(+)
220341.HCM2.0086c(+)
220341.STY3464(+)
220341.STY0862(+)
220341.STY3265(+)
220341.STY2981(+)
220341.STY1785(+)
220341.STY0326(+)
220341.STY3762(+)
220341.STY2677(+)
220341.STY3412(+)
220341.STY3416(+)
220341.STY0471(+)
220341.STY1121(+)
220341.STY1124(+)not used
220341.STY1125(+)not used
220341.STY3328(+)
220341.STY0038(+)
220341.HCM1.279bc(+)
220341.STY1027(+)
220341.STY1798(+)
220341.STY1057(+)
220341.STY4630(+)
220341.STY0048(+)
220341.STY3661(+)
220341.STY4496(+)
220341.STY1809(+)
220341.STY2930(+)
220341.STY2931(+)
220341.STY0684(+)
220341.STY3880(+)
220341.STY2683(+)
220341.STY3536(+)
220341.STY4269(+)
220341.STY3330(+)
220341.STY1308(+)
220341.STY0307(+)
220341.STY0751(+)
220341.STY4158(+)
220341.STY2699(+)
220341.STY2696(+)
220341.STY4060(+)
220341.STY2109(+)
220341.STY1459(+)
220341.STY0410(+)
220341.STY4383(+)
220341.STY1642(+)not used
220341.STY4813(+)
220341.STY4815(+)
220341.STY0127(+)
220341.STY2050(+)
220341.STY0049(+)
220341.STY4364(+)
220341.STY0422(+)
220341.STY1918(+)
220341.STY0424(+)
220341.STY1914(+)
220341.STY1917(+)
220341.STY0736(+)
220341.STY2770(+)
220341.STY2006(+)not used
220341.STY2003(+)
220341.HCM1.181(+)
220341.STY0822(+)
220341.HCM1.34c(+)
220341.STY4770(+)
220341.STY3986(+)
220341.STY3987(+)
220341.STY1856(+)
220341.STY1857(+)
220341.HCM2.0075c+
220341.STY1010(+)
220341.STY1011(+)
220341.STY0439(+)
220341.STY3293(+)
220341.STY0727(+)
220341.STY2769(+)
220341.STY2168(+)
220341.STY3841(+)
220341.STY2515(+)
220341.STY2019(+)
220341.STY1117(+)
220341.STY3311(+)
220341.STY0305(+)
220341.STY3513(+)
220341.STY0086(+)
220341.STY0879(+)
220341.STY2714(+)
220341.STY3375(+)
220341.STY3173(+)
220341.STY1993(+)
220341.STY2157(+)
220341.STY2151(+)
220341.STY2397(+)
220341.STY4672(+)
220341.HCM1.161(+)
220341.HCM1.46(+)
220341.STY4401(+)
220341.STY3761(+)
220341.STY1944(+)
220341.STY4534(+)
220341.STY2703(+)
220341.STY2635(+)
220341.STY2045(+)
220341.STY2083(+)
220341.STY1429(+)
220341.STY1042(+)
220341.STY1044(+)
220341.STY4224(+)
220341.STY1048(+)
220341.STY1551(+)
220341.STY4074(+)
220341.STY3008(+)
220341.STY4525(+)
220341.STY0774(+)
220341.STY0609(+)
220341.STY3849(+)
220341.STY0304(+)
220341.STY2606(+)
220341.STY2044(+)
220341.STY0019(+)
220341.STY4206(+)
220341.STY1638(+)not used
220341.STY0066(+)
220341.STY1709(+)
220341.STY1147(+)
220341.HCM1.286c(+)
220341.STY4463(+)
220341.STY3838(+)
220341.STY3495(+)
220341.STY1446(+)
220341.STY3125(+)
220341.STY2830(+)
220341.STY3189(+)
220341.STY1621(+)
220341.STY1627(+)
220341.STY3073(+)
220341.STY1390(+)
220341.STY4347(+)
220341.HCM1.288(+)
220341.STY1106(+)
220341.STY0117(+)
220341.STY0282(+)
220341.STY4099(+)
220341.STY2556(+)
220341.STY0755(+)not used
220341.STY0670(+)
220341.STY0599(+)
220341.STY3786(+)
220341.STY2994(+)
220341.STY2995(+)
220341.STY2996(+)
220341.HCM2.0042c(+)
220341.HCM2.0081(+)
220341.STY2842(+)
220341.HCM2.0049c(+)
220341.STY0837(+)
220341.STY1761(+)
220341.STY0968(+)
220341.STY3252(+)
220341.STY3997(+)
220341.STY0361(+)
220341.STY4712(+)
220341.STY3724(+)not used
220341.STY3580(+)
220341.STY0582(+)
220341.STY2292(+)
220341.STY2989(+)
220341.STY4446(+)
220341.STY2853(+)
220341.STY0891(+)
220341.STY4547(+)
220341.STY3215(+)
220341.STY2078(+)not used
220341.STY2075(+)
220341.STY1643(+)
220341.HCM1.132(+)
220341.STY4095(+)
220341.STY1517(+)
220341.STY1173(+)
220341.STY3380(+)
220341.STY0826(+)
220341.STY3930(+)
220341.STY4458(+)
220341.STY0643(+)
220341.STY0641(+)
220341.STY0647(+)
220341.STY2888(+)
220341.STY3446(+)
220341.STY0151(+)
220341.STY3208(+)
220341.STY4787(+)
220341.STY2249(+)
220341.HCM1.101(+)
220341.STY0363(+)
220341.STY1695(+)
220341.STY1349(+)
220341.STY4395(+)
220341.STY1980(+)
220341.STY2652(+)
220341.STY0348(+)
220341.STY3696(+)
220341.STY4842(+)
220341.STY1521(+)
220341.STY3205(+)
220341.STY4116(+)
220341.STY0018(+)
220341.STY3721(+)
220341.STY4592(+)
220341.STY4591(+)
220341.STY3907(+)
220341.STY4607(+)
220341.STY3059(+)
220341.STY3690(+)
220341.STY4930(+)
220341.STY1022(+)
220341.STY0292(+)
220341.STY1345(+)

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 = 2.0 (20/10 KEGG proteins)
  • Functional Type IV secretion system: YES (FDR = 7.2 %)
    Estimated copy number = 0.1 (1/10 KEGG proteins)
  • Functional Type VI secretion system: YES (FDR = 7.7 %)
    Estimated copy number = 1.25 (10/8 KEGG proteins)

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