Amino acid dipepetide frequency for Ruegeria sp. (strain TM1040) (Silicibacter sp.)

Apart from single amino acid frequencies one can also calculate so called amino acid dipeptide frequency.

There is 400 possibilites (441 if we consider Xaa as additional 21st amino acid representing all non-standard or unknown amino acids). Thus, if the dipeptides would be present randomly in proteins each amino acid dipeptide should be present with 0.25% frequency. As it is not the case in the nature, for better visablity all more than expected dipepetides are marked by red, and those which are underrepresented are marked by blue in the table.

All values are presented as per milles (‰), therefore need to be multiplied by 10^-3.

For more information see sequence space article on Wikipedia.

	Ala	Cys	Asp	Glu	Phe	Gly	His	Ile	Lys	Leu	Met	Asn	Pro	Gln	Arg	Ser	Thr	Val	Trp	Tyr	Xaa
Ala	15.516AlaAla: 15.516 ± 0.154	1.101AlaCys: 1.101 ± 0.035	6.52AlaAsp: 6.52 ± 0.071	8.625AlaGlu: 8.625 ± 0.115	4.141AlaPhe: 4.141 ± 0.06	9.808AlaGly: 9.808 ± 0.098	2.43AlaHis: 2.43 ± 0.048	5.476AlaIle: 5.476 ± 0.072	3.937AlaLys: 3.937 ± 0.069	13.692AlaLeu: 13.692 ± 0.134	3.681AlaMet: 3.681 ± 0.057	2.732AlaAsn: 2.732 ± 0.046	5.818AlaPro: 5.818 ± 0.103	4.983AlaGln: 4.983 ± 0.061	8.398AlaArg: 8.398 ± 0.108	5.99AlaSer: 5.99 ± 0.086	5.873AlaThr: 5.873 ± 0.082	7.822AlaVal: 7.822 ± 0.091	1.322AlaTrp: 1.322 ± 0.036	2.606AlaTyr: 2.606 ± 0.047	0.0AlaXaa: 0.0 ± 0.0
Cys	1.183CysAla: 1.183 ± 0.031	0.118CysCys: 0.118 ± 0.011	0.633CysAsp: 0.633 ± 0.024	0.455CysGlu: 0.455 ± 0.02	0.381CysPhe: 0.381 ± 0.019	0.929CysGly: 0.929 ± 0.03	0.292CysHis: 0.292 ± 0.017	0.424CysIle: 0.424 ± 0.021	0.228CysLys: 0.228 ± 0.013	0.884CysLeu: 0.884 ± 0.029	0.178CysMet: 0.178 ± 0.014	0.233CysAsn: 0.233 ± 0.014	0.501CysPro: 0.501 ± 0.022	0.259CysGln: 0.259 ± 0.016	0.565CysArg: 0.565 ± 0.022	0.476CysSer: 0.476 ± 0.024	0.496CysThr: 0.496 ± 0.022	0.647CysVal: 0.647 ± 0.024	0.113CysTrp: 0.113 ± 0.011	0.228CysTyr: 0.228 ± 0.015	0.0CysXaa: 0.0 ± 0.0
Asp	7.148AspAla: 7.148 ± 0.098	0.546AspCys: 0.546 ± 0.022	3.076AspAsp: 3.076 ± 0.066	3.495AspGlu: 3.495 ± 0.055	2.294AspPhe: 2.294 ± 0.049	5.089AspGly: 5.089 ± 0.076	1.354AspHis: 1.354 ± 0.038	3.13AspIle: 3.13 ± 0.048	1.762AspLys: 1.762 ± 0.051	6.72AspLeu: 6.72 ± 0.085	1.676AspMet: 1.676 ± 0.037	1.336AspAsn: 1.336 ± 0.036	3.406AspPro: 3.406 ± 0.054	2.087AspGln: 2.087 ± 0.044	3.872AspArg: 3.872 ± 0.055	2.393AspSer: 2.393 ± 0.051	3.018AspThr: 3.018 ± 0.061	4.426AspVal: 4.426 ± 0.058	1.127AspTrp: 1.127 ± 0.031	1.545AspTyr: 1.545 ± 0.034	0.0AspXaa: 0.0 ± 0.0
Glu	8.551GluAla: 8.551 ± 0.104	0.371GluCys: 0.371 ± 0.016	3.713GluAsp: 3.713 ± 0.051	4.078GluGlu: 4.078 ± 0.071	1.959GluPhe: 1.959 ± 0.04	5.17GluGly: 5.17 ± 0.076	1.212GluHis: 1.212 ± 0.034	4.153GluIle: 4.153 ± 0.069	2.235GluLys: 2.235 ± 0.05	5.565GluLeu: 5.565 ± 0.082	1.946GluMet: 1.946 ± 0.044	1.835GluAsn: 1.835 ± 0.039	2.489GluPro: 2.489 ± 0.057	2.255GluGln: 2.255 ± 0.05	4.318GluArg: 4.318 ± 0.07	2.471GluSer: 2.471 ± 0.043	4.124GluThr: 4.124 ± 0.061	4.711GluVal: 4.711 ± 0.062	0.718GluTrp: 0.718 ± 0.027	1.073GluTyr: 1.073 ± 0.029	0.0GluXaa: 0.0 ± 0.0
Phe	4.423PheAla: 4.423 ± 0.065	0.461PheCys: 0.461 ± 0.016	2.935PheAsp: 2.935 ± 0.053	2.449PheGlu: 2.449 ± 0.04	1.398PhePhe: 1.398 ± 0.04	3.614PheGly: 3.614 ± 0.059	0.742PheHis: 0.742 ± 0.026	1.567PheIle: 1.567 ± 0.038	1.055PheLys: 1.055 ± 0.031	3.361PheLeu: 3.361 ± 0.057	0.868PheMet: 0.868 ± 0.027	1.096PheAsn: 1.096 ± 0.03	1.477PhePro: 1.477 ± 0.037	1.126PheGln: 1.126 ± 0.028	1.971PheArg: 1.971 ± 0.041	2.278PheSer: 2.278 ± 0.05	2.038PheThr: 2.038 ± 0.046	2.658PheVal: 2.658 ± 0.049	0.597PheTrp: 0.597 ± 0.023	0.946PheTyr: 0.946 ± 0.032	0.0PheXaa: 0.0 ± 0.0
Gly	9.59GlyAla: 9.59 ± 0.097	0.864GlyCys: 0.864 ± 0.029	4.655GlyAsp: 4.655 ± 0.074	4.744GlyGlu: 4.744 ± 0.071	3.689GlyPhe: 3.689 ± 0.059	7.118GlyGly: 7.118 ± 0.12	1.944GlyHis: 1.944 ± 0.046	4.171GlyIle: 4.171 ± 0.061	3.086GlyLys: 3.086 ± 0.059	8.875GlyLeu: 8.875 ± 0.1	2.412GlyMet: 2.412 ± 0.045	2.135GlyAsn: 2.135 ± 0.051	3.196GlyPro: 3.196 ± 0.057	3.2GlyGln: 3.2 ± 0.054	5.308GlyArg: 5.308 ± 0.072	4.214GlySer: 4.214 ± 0.065	4.511GlyThr: 4.511 ± 0.08	6.283GlyVal: 6.283 ± 0.078	1.378GlyTrp: 1.378 ± 0.036	2.324GlyTyr: 2.324 ± 0.045	0.0GlyXaa: 0.0 ± 0.0
His	2.363HisAla: 2.363 ± 0.052	0.265HisCys: 0.265 ± 0.015	1.273HisAsp: 1.273 ± 0.04	1.098HisGlu: 1.098 ± 0.032	0.833HisPhe: 0.833 ± 0.025	1.846HisGly: 1.846 ± 0.043	0.575HisHis: 0.575 ± 0.025	1.03HisIle: 1.03 ± 0.027	0.581HisLys: 0.581 ± 0.019	2.245HisLeu: 2.245 ± 0.044	0.607HisMet: 0.607 ± 0.022	0.49HisAsn: 0.49 ± 0.019	1.368HisPro: 1.368 ± 0.029	0.708HisGln: 0.708 ± 0.025	1.337HisArg: 1.337 ± 0.031	1.004HisSer: 1.004 ± 0.029	0.828HisThr: 0.828 ± 0.028	1.524HisVal: 1.524 ± 0.038	0.376HisTrp: 0.376 ± 0.019	0.566HisTyr: 0.566 ± 0.024	0.0HisXaa: 0.0 ± 0.0
Ile	6.638IleAla: 6.638 ± 0.072	0.664IleCys: 0.664 ± 0.023	3.301IleAsp: 3.301 ± 0.059	3.63IleGlu: 3.63 ± 0.057	1.718IlePhe: 1.718 ± 0.043	4.649IleGly: 4.649 ± 0.068	0.927IleHis: 0.927 ± 0.028	2.101IleIle: 2.101 ± 0.043	1.636IleLys: 1.636 ± 0.04	4.841IleLeu: 4.841 ± 0.071	1.099IleMet: 1.099 ± 0.03	1.456IleAsn: 1.456 ± 0.033	2.162IlePro: 2.162 ± 0.045	1.341IleGln: 1.341 ± 0.031	3.076IleArg: 3.076 ± 0.055	3.341IleSer: 3.341 ± 0.049	3.007IleThr: 3.007 ± 0.047	3.356IleVal: 3.356 ± 0.056	0.734IleTrp: 0.734 ± 0.027	1.234IleTyr: 1.234 ± 0.031	0.0IleXaa: 0.0 ± 0.0
Lys	4.059LysAla: 4.059 ± 0.069	0.186LysCys: 0.186 ± 0.012	2.023LysAsp: 2.023 ± 0.044	1.842LysGlu: 1.842 ± 0.049	0.984LysPhe: 0.984 ± 0.028	2.793LysGly: 2.793 ± 0.054	0.67LysHis: 0.67 ± 0.024	1.838LysIle: 1.838 ± 0.041	1.283LysLys: 1.283 ± 0.042	3.104LysLeu: 3.104 ± 0.047	0.928LysMet: 0.928 ± 0.031	0.865LysAsn: 0.865 ± 0.027	1.812LysPro: 1.812 ± 0.046	0.945LysGln: 0.945 ± 0.03	2.31LysArg: 2.31 ± 0.043	2.009LysSer: 2.009 ± 0.042	2.086LysThr: 2.086 ± 0.045	2.315LysVal: 2.315 ± 0.048	0.389LysTrp: 0.389 ± 0.018	0.669LysTyr: 0.669 ± 0.023	0.0LysXaa: 0.0 ± 0.0
Leu	12.125LeuAla: 12.125 ± 0.118	1.037LeuCys: 1.037 ± 0.032	5.918LeuAsp: 5.918 ± 0.068	6.049LeuGlu: 6.049 ± 0.077	3.504LeuPhe: 3.504 ± 0.061	8.121LeuGly: 8.121 ± 0.094	1.924LeuHis: 1.924 ± 0.043	5.057LeuIle: 5.057 ± 0.078	3.522LeuLys: 3.522 ± 0.055	8.95LeuLeu: 8.95 ± 0.116	2.837LeuMet: 2.837 ± 0.048	2.857LeuAsn: 2.857 ± 0.049	5.529LeuPro: 5.529 ± 0.08	3.238LeuGln: 3.238 ± 0.06	7.311LeuArg: 7.311 ± 0.089	7.183LeuSer: 7.183 ± 0.086	5.851LeuThr: 5.851 ± 0.077	6.725LeuVal: 6.725 ± 0.082	1.338LeuTrp: 1.338 ± 0.037	2.008LeuTyr: 2.008 ± 0.048	0.0LeuXaa: 0.0 ± 0.0
Met	3.365MetAla: 3.365 ± 0.056	0.196MetCys: 0.196 ± 0.012	1.419MetAsp: 1.419 ± 0.037	1.424MetGlu: 1.424 ± 0.037	0.819MetPhe: 0.819 ± 0.029	2.212MetGly: 2.212 ± 0.048	0.465MetHis: 0.465 ± 0.018	1.592MetIle: 1.592 ± 0.036	1.058MetLys: 1.058 ± 0.031	2.646MetLeu: 2.646 ± 0.046	0.817MetMet: 0.817 ± 0.027	0.819MetAsn: 0.819 ± 0.027	1.465MetPro: 1.465 ± 0.041	1.104MetGln: 1.104 ± 0.027	1.937MetArg: 1.937 ± 0.04	1.925MetSer: 1.925 ± 0.04	2.083MetThr: 2.083 ± 0.041	1.908MetVal: 1.908 ± 0.04	0.261MetTrp: 0.261 ± 0.017	0.369MetTyr: 0.369 ± 0.019	0.0MetXaa: 0.0 ± 0.0
Asn	3.297AsnAla: 3.297 ± 0.053	0.255AsnCys: 0.255 ± 0.015	1.509AsnAsp: 1.509 ± 0.052	1.28AsnGlu: 1.28 ± 0.037	0.987AsnPhe: 0.987 ± 0.029	2.432AsnGly: 2.432 ± 0.048	0.531AsnHis: 0.531 ± 0.02	1.427AsnIle: 1.427 ± 0.038	0.747AsnLys: 0.747 ± 0.029	2.642AsnLeu: 2.642 ± 0.049	0.732AsnMet: 0.732 ± 0.026	0.696AsnAsn: 0.696 ± 0.028	1.802AsnPro: 1.802 ± 0.043	0.822AsnGln: 0.822 ± 0.023	1.735AsnArg: 1.735 ± 0.035	1.262AsnSer: 1.262 ± 0.036	1.432AsnThr: 1.432 ± 0.033	1.854AsnVal: 1.854 ± 0.038	0.455AsnTrp: 0.455 ± 0.017	0.672AsnTyr: 0.672 ± 0.023	0.0AsnXaa: 0.0 ± 0.0
Pro	5.361ProAla: 5.361 ± 0.083	0.386ProCys: 0.386 ± 0.017	3.432ProAsp: 3.432 ± 0.062	4.422ProGlu: 4.422 ± 0.063	1.918ProPhe: 1.918 ± 0.043	3.842ProGly: 3.842 ± 0.054	1.097ProHis: 1.097 ± 0.03	2.167ProIle: 2.167 ± 0.046	1.784ProLys: 1.784 ± 0.039	4.563ProLeu: 4.563 ± 0.073	1.287ProMet: 1.287 ± 0.037	1.35ProAsn: 1.35 ± 0.037	2.047ProPro: 2.047 ± 0.049	1.81ProGln: 1.81 ± 0.037	2.607ProArg: 2.607 ± 0.047	2.702ProSer: 2.702 ± 0.049	2.413ProThr: 2.413 ± 0.044	4.021ProVal: 4.021 ± 0.067	0.618ProTrp: 0.618 ± 0.023	1.142ProTyr: 1.142 ± 0.029	0.0ProXaa: 0.0 ± 0.0
Gln	4.198GlnAla: 4.198 ± 0.067	0.221GlnCys: 0.221 ± 0.013	2.023GlnAsp: 2.023 ± 0.043	1.965GlnGlu: 1.965 ± 0.04	1.128GlnPhe: 1.128 ± 0.031	2.688GlnGly: 2.688 ± 0.052	0.692GlnHis: 0.692 ± 0.024	2.162GlnIle: 2.162 ± 0.042	1.221GlnLys: 1.221 ± 0.029	3.102GlnLeu: 3.102 ± 0.053	1.202GlnMet: 1.202 ± 0.03	1.021GlnAsn: 1.021 ± 0.031	1.632GlnPro: 1.632 ± 0.04	1.239GlnGln: 1.239 ± 0.034	2.432GlnArg: 2.432 ± 0.052	2.241GlnSer: 2.241 ± 0.046	2.02GlnThr: 2.02 ± 0.036	2.508GlnVal: 2.508 ± 0.041	0.406GlnTrp: 0.406 ± 0.019	0.673GlnTyr: 0.673 ± 0.027	0.0GlnXaa: 0.0 ± 0.0
Arg	7.976ArgAla: 7.976 ± 0.095	0.496ArgCys: 0.496 ± 0.021	4.174ArgAsp: 4.174 ± 0.064	3.878ArgGlu: 3.878 ± 0.063	2.617ArgPhe: 2.617 ± 0.042	4.372ArgGly: 4.372 ± 0.058	1.521ArgHis: 1.521 ± 0.031	3.62ArgIle: 3.62 ± 0.056	2.324ArgLys: 2.324 ± 0.047	7.164ArgLeu: 7.164 ± 0.102	1.909ArgMet: 1.909 ± 0.041	1.783ArgAsn: 1.783 ± 0.034	3.046ArgPro: 3.046 ± 0.061	2.389ArgGln: 2.389 ± 0.044	4.622ArgArg: 4.622 ± 0.072	3.413ArgSer: 3.413 ± 0.053	2.88ArgThr: 2.88 ± 0.047	4.568ArgVal: 4.568 ± 0.063	0.848ArgTrp: 0.848 ± 0.028	1.518ArgTyr: 1.518 ± 0.038	0.0ArgXaa: 0.0 ± 0.0
Ser	6.409SerAla: 6.409 ± 0.085	0.486SerCys: 0.486 ± 0.021	3.578SerAsp: 3.578 ± 0.056	3.478SerGlu: 3.478 ± 0.054	2.38SerPhe: 2.38 ± 0.045	5.614SerGly: 5.614 ± 0.089	1.225SerHis: 1.225 ± 0.029	2.594SerIle: 2.594 ± 0.045	1.737SerLys: 1.737 ± 0.044	5.426SerLeu: 5.426 ± 0.074	1.486SerMet: 1.486 ± 0.036	1.465SerAsn: 1.465 ± 0.039	2.567SerPro: 2.567 ± 0.044	1.855SerGln: 1.855 ± 0.043	3.247SerArg: 3.247 ± 0.054	2.925SerSer: 2.925 ± 0.07	2.747SerThr: 2.747 ± 0.056	3.922SerVal: 3.922 ± 0.058	0.772SerTrp: 0.772 ± 0.024	1.451SerTyr: 1.451 ± 0.039	0.0SerXaa: 0.0 ± 0.0
Thr	6.127ThrAla: 6.127 ± 0.089	0.528ThrCys: 0.528 ± 0.024	2.952ThrAsp: 2.952 ± 0.052	3.205ThrGlu: 3.205 ± 0.06	1.959ThrPhe: 1.959 ± 0.04	5.082ThrGly: 5.082 ± 0.069	1.199ThrHis: 1.199 ± 0.036	2.629ThrIle: 2.629 ± 0.059	1.552ThrLys: 1.552 ± 0.034	6.153ThrLeu: 6.153 ± 0.082	1.196ThrMet: 1.196 ± 0.032	1.344ThrAsn: 1.344 ± 0.031	3.548ThrPro: 3.548 ± 0.054	1.855ThrGln: 1.855 ± 0.042	3.485ThrArg: 3.485 ± 0.054	2.998ThrSer: 2.998 ± 0.056	2.831ThrThr: 2.831 ± 0.061	4.003ThrVal: 4.003 ± 0.07	0.691ThrTrp: 0.691 ± 0.025	1.336ThrTyr: 1.336 ± 0.041	0.0ThrXaa: 0.0 ± 0.0
Val	8.314ValAla: 8.314 ± 0.078	0.617ValCys: 0.617 ± 0.027	3.986ValAsp: 3.986 ± 0.063	4.827ValGlu: 4.827 ± 0.058	2.852ValPhe: 2.852 ± 0.057	5.193ValGly: 5.193 ± 0.086	1.249ValHis: 1.249 ± 0.036	4.151ValIle: 4.151 ± 0.062	2.279ValLys: 2.279 ± 0.045	7.338ValLeu: 7.338 ± 0.085	2.079ValMet: 2.079 ± 0.042	2.021ValAsn: 2.021 ± 0.048	3.358ValPro: 3.358 ± 0.06	2.162ValGln: 2.162 ± 0.046	3.897ValArg: 3.897 ± 0.058	4.46ValSer: 4.46 ± 0.067	4.605ValThr: 4.605 ± 0.064	5.633ValVal: 5.633 ± 0.078	0.911ValTrp: 0.911 ± 0.031	1.461ValTyr: 1.461 ± 0.037	0.0ValXaa: 0.0 ± 0.0
Trp	1.265TrpAla: 1.265 ± 0.033	0.161TrpCys: 0.161 ± 0.011	0.796TrpAsp: 0.796 ± 0.024	0.662TrpGlu: 0.662 ± 0.027	0.582TrpPhe: 0.582 ± 0.022	1.032TrpGly: 1.032 ± 0.035	0.336TrpHis: 0.336 ± 0.02	0.695TrpIle: 0.695 ± 0.028	0.439TrpLys: 0.439 ± 0.021	1.486TrpLeu: 1.486 ± 0.042	0.418TrpMet: 0.418 ± 0.018	0.424TrpAsn: 0.424 ± 0.019	0.67TrpPro: 0.67 ± 0.025	0.646TrpGln: 0.646 ± 0.024	1.109TrpArg: 1.109 ± 0.032	0.845TrpSer: 0.845 ± 0.03	0.714TrpThr: 0.714 ± 0.027	0.898TrpVal: 0.898 ± 0.031	0.206TrpTrp: 0.206 ± 0.013	0.265TrpTyr: 0.265 ± 0.015	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.564TyrAla: 2.564 ± 0.044	0.262TyrCys: 0.262 ± 0.014	1.585TyrAsp: 1.585 ± 0.041	1.341TyrGlu: 1.341 ± 0.037	0.918TyrPhe: 0.918 ± 0.031	2.097TyrGly: 2.097 ± 0.042	0.531TyrHis: 0.531 ± 0.022	0.928TyrIle: 0.928 ± 0.027	0.641TyrLys: 0.641 ± 0.021	2.327TyrLeu: 2.327 ± 0.044	0.526TyrMet: 0.526 ± 0.021	0.611TyrAsn: 0.611 ± 0.024	1.078TyrPro: 1.078 ± 0.028	0.749TyrGln: 0.749 ± 0.024	1.58TyrArg: 1.58 ± 0.033	1.233TyrSer: 1.233 ± 0.033	1.116TyrThr: 1.116 ± 0.029	1.614TyrVal: 1.614 ± 0.036	0.388TyrTrp: 0.388 ± 0.017	0.61TyrTyr: 0.61 ± 0.024	0.0TyrXaa: 0.0 ± 0.0
Xaa	0.0XaaAla: 0.0 ± 0.0	0.0XaaCys: 0.0 ± 0.0	0.0XaaAsp: 0.0 ± 0.0	0.0XaaGlu: 0.0 ± 0.0	0.0XaaPhe: 0.0 ± 0.0	0.0XaaGly: 0.0 ± 0.0	0.0XaaHis: 0.0 ± 0.0	0.0XaaIle: 0.0 ± 0.0	0.0XaaLys: 0.0 ± 0.0	0.0XaaLeu: 0.0 ± 0.0	0.0XaaMet: 0.0 ± 0.0	0.0XaaAsn: 0.0 ± 0.0	0.0XaaPro: 0.0 ± 0.0	0.0XaaGln: 0.0 ± 0.0	0.0XaaArg: 0.0 ± 0.0	0.0XaaSer: 0.0 ± 0.0	0.0XaaThr: 0.0 ± 0.0	0.0XaaVal: 0.0 ± 0.0	0.0XaaTrp: 0.0 ± 0.0	0.0XaaTyr: 0.0 ± 0.0	0.0XaaXaa: 0.0 ± 0.0

Statistics based on 3849 proteins (1216663 amino acids)

Note: The error has been estimated with the bootstraping (x100) at the protein level

Above dipeptide statistics (among other stats for this proteome) you can download from this CSV file

Reference: Kozlowski LP. Proteome-pI 2.0: Proteome Isoelectric Point Database Update. Nucleic Acids Res. 2021, doi: 10.1093/nar/gkab944

Contact: Lukasz P. Kozlowski

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