Amino acid dipepetide frequency for Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)

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	6.248AlaAla: 6.248 ± 0.126	0.573AlaCys: 0.573 ± 0.028	4.645AlaAsp: 4.645 ± 0.256	5.69AlaGlu: 5.69 ± 0.097	3.448AlaPhe: 3.448 ± 0.067	5.754AlaGly: 5.754 ± 0.093	1.232AlaHis: 1.232 ± 0.037	6.441AlaIle: 6.441 ± 0.1	5.738AlaLys: 5.738 ± 0.104	7.416AlaLeu: 7.416 ± 0.096	2.03AlaMet: 2.03 ± 0.044	3.392AlaAsn: 3.392 ± 0.067	2.224AlaPro: 2.224 ± 0.057	2.159AlaGln: 2.159 ± 0.053	2.669AlaArg: 2.669 ± 0.062	4.552AlaSer: 4.552 ± 0.076	4.64AlaThr: 4.64 ± 0.089	5.481AlaVal: 5.481 ± 0.085	0.617AlaTrp: 0.617 ± 0.026	2.425AlaTyr: 2.425 ± 0.051	0.0AlaXaa: 0.0 ± 0.0
Cys	0.436CysAla: 0.436 ± 0.026	0.073CysCys: 0.073 ± 0.009	0.328CysAsp: 0.328 ± 0.022	0.37CysGlu: 0.37 ± 0.023	0.346CysPhe: 0.346 ± 0.02	0.59CysGly: 0.59 ± 0.029	0.153CysHis: 0.153 ± 0.014	0.458CysIle: 0.458 ± 0.027	0.255CysLys: 0.255 ± 0.018	0.603CysLeu: 0.603 ± 0.029	0.146CysMet: 0.146 ± 0.012	0.23CysAsn: 0.23 ± 0.017	0.239CysPro: 0.239 ± 0.019	0.192CysGln: 0.192 ± 0.017	0.22CysArg: 0.22 ± 0.018	0.39CysSer: 0.39 ± 0.021	0.331CysThr: 0.331 ± 0.02	0.398CysVal: 0.398 ± 0.023	0.068CysTrp: 0.068 ± 0.009	0.265CysTyr: 0.265 ± 0.019	0.0CysXaa: 0.0 ± 0.0
Asp	4.392AspAla: 4.392 ± 0.251	0.3AspCys: 0.3 ± 0.02	2.655AspAsp: 2.655 ± 0.062	4.241AspGlu: 4.241 ± 0.071	2.958AspPhe: 2.958 ± 0.065	3.876AspGly: 3.876 ± 0.08	0.826AspHis: 0.826 ± 0.03	4.141AspIle: 4.141 ± 0.074	3.892AspLys: 3.892 ± 0.072	5.088AspLeu: 5.088 ± 0.073	1.41AspMet: 1.41 ± 0.044	2.297AspAsn: 2.297 ± 0.054	1.832AspPro: 1.832 ± 0.059	1.536AspGln: 1.536 ± 0.045	1.843AspArg: 1.843 ± 0.051	2.887AspSer: 2.887 ± 0.061	3.065AspThr: 3.065 ± 0.065	4.093AspVal: 4.093 ± 0.066	0.63AspTrp: 0.63 ± 0.03	2.488AspTyr: 2.488 ± 0.058	0.0AspXaa: 0.0 ± 0.0
Glu	5.889GluAla: 5.889 ± 0.097	0.297GluCys: 0.297 ± 0.018	3.61GluAsp: 3.61 ± 0.07	6.404GluGlu: 6.404 ± 0.098	2.548GluPhe: 2.548 ± 0.065	3.639GluGly: 3.639 ± 0.079	1.225GluHis: 1.225 ± 0.043	5.84GluIle: 5.84 ± 0.092	7.249GluLys: 7.249 ± 0.107	7.175GluLeu: 7.175 ± 0.093	2.378GluMet: 2.378 ± 0.056	4.165GluAsn: 4.165 ± 0.084	1.961GluPro: 1.961 ± 0.05	3.013GluGln: 3.013 ± 0.062	3.196GluArg: 3.196 ± 0.072	3.382GluSer: 3.382 ± 0.054	4.501GluThr: 4.501 ± 0.074	5.201GluVal: 5.201 ± 0.092	0.696GluTrp: 0.696 ± 0.028	2.016GluTyr: 2.016 ± 0.056	0.0GluXaa: 0.0 ± 0.0
Phe	3.27PheAla: 3.27 ± 0.066	0.325PheCys: 0.325 ± 0.02	2.614PheAsp: 2.614 ± 0.054	2.832PheGlu: 2.832 ± 0.063	2.317PhePhe: 2.317 ± 0.06	3.352PheGly: 3.352 ± 0.061	0.862PheHis: 0.862 ± 0.035	3.73PheIle: 3.73 ± 0.082	2.347PheLys: 2.347 ± 0.055	4.435PheLeu: 4.435 ± 0.094	1.185PheMet: 1.185 ± 0.038	1.848PheAsn: 1.848 ± 0.054	1.652PhePro: 1.652 ± 0.049	1.602PheGln: 1.602 ± 0.044	1.5PheArg: 1.5 ± 0.04	3.192PheSer: 3.192 ± 0.078	2.632PheThr: 2.632 ± 0.056	3.3PheVal: 3.3 ± 0.076	0.532PheTrp: 0.532 ± 0.03	1.781PheTyr: 1.781 ± 0.051	0.0PheXaa: 0.0 ± 0.0
Gly	5.084GlyAla: 5.084 ± 0.086	0.473GlyCys: 0.473 ± 0.025	3.399GlyAsp: 3.399 ± 0.063	4.5GlyGlu: 4.5 ± 0.088	3.388GlyPhe: 3.388 ± 0.073	4.682GlyGly: 4.682 ± 0.106	1.184GlyHis: 1.184 ± 0.045	5.836GlyIle: 5.836 ± 0.09	4.984GlyLys: 4.984 ± 0.074	6.28GlyLeu: 6.28 ± 0.098	1.966GlyMet: 1.966 ± 0.059	2.81GlyAsn: 2.81 ± 0.069	1.511GlyPro: 1.511 ± 0.046	1.921GlyGln: 1.921 ± 0.051	2.325GlyArg: 2.325 ± 0.057	3.721GlySer: 3.721 ± 0.08	4.191GlyThr: 4.191 ± 0.08	5.058GlyVal: 5.058 ± 0.094	0.733GlyTrp: 0.733 ± 0.035	2.663GlyTyr: 2.663 ± 0.065	0.0GlyXaa: 0.0 ± 0.0
His	1.265HisAla: 1.265 ± 0.037	0.137HisCys: 0.137 ± 0.012	0.951HisAsp: 0.951 ± 0.034	1.085HisGlu: 1.085 ± 0.036	1.009HisPhe: 1.009 ± 0.035	1.311HisGly: 1.311 ± 0.043	0.486HisHis: 0.486 ± 0.022	1.341HisIle: 1.341 ± 0.042	0.896HisLys: 0.896 ± 0.031	1.866HisLeu: 1.866 ± 0.052	0.449HisMet: 0.449 ± 0.022	0.648HisAsn: 0.648 ± 0.03	0.883HisPro: 0.883 ± 0.038	0.686HisGln: 0.686 ± 0.03	0.718HisArg: 0.718 ± 0.026	0.962HisSer: 0.962 ± 0.038	0.923HisThr: 0.923 ± 0.034	1.214HisVal: 1.214 ± 0.035	0.201HisTrp: 0.201 ± 0.014	0.764HisTyr: 0.764 ± 0.034	0.0HisXaa: 0.0 ± 0.0
Ile	6.504IleAla: 6.504 ± 0.088	0.674IleCys: 0.674 ± 0.027	4.275IleAsp: 4.275 ± 0.072	5.242IleGlu: 5.242 ± 0.084	3.49IlePhe: 3.49 ± 0.078	5.828IleGly: 5.828 ± 0.099	1.55IleHis: 1.55 ± 0.046	6.317IleIle: 6.317 ± 0.113	4.45IleLys: 4.45 ± 0.073	7.056IleLeu: 7.056 ± 0.106	1.868IleMet: 1.868 ± 0.05	3.35IleAsn: 3.35 ± 0.071	3.489IlePro: 3.489 ± 0.068	2.702IleGln: 2.702 ± 0.054	2.99IleArg: 2.99 ± 0.068	5.189IleSer: 5.189 ± 0.084	5.016IleThr: 5.016 ± 0.083	5.283IleVal: 5.283 ± 0.09	0.671IleTrp: 0.671 ± 0.031	2.453IleTyr: 2.453 ± 0.047	0.0IleXaa: 0.0 ± 0.0
Lys	5.405LysAla: 5.405 ± 0.098	0.25LysCys: 0.25 ± 0.016	3.948LysAsp: 3.948 ± 0.082	6.68LysGlu: 6.68 ± 0.102	2.044LysPhe: 2.044 ± 0.05	3.81LysGly: 3.81 ± 0.067	1.13LysHis: 1.13 ± 0.031	5.125LysIle: 5.125 ± 0.087	6.15LysLys: 6.15 ± 0.111	6.279LysLeu: 6.279 ± 0.099	2.646LysMet: 2.646 ± 0.054	3.908LysAsn: 3.908 ± 0.072	2.207LysPro: 2.207 ± 0.054	3.215LysGln: 3.215 ± 0.068	2.98LysArg: 2.98 ± 0.062	3.637LysSer: 3.637 ± 0.076	4.368LysThr: 4.368 ± 0.065	4.717LysVal: 4.717 ± 0.076	0.785LysTrp: 0.785 ± 0.03	2.345LysTyr: 2.345 ± 0.051	0.0LysXaa: 0.0 ± 0.0
Leu	8.071LeuAla: 8.071 ± 0.11	0.649LeuCys: 0.649 ± 0.031	5.157LeuAsp: 5.157 ± 0.077	7.141LeuGlu: 7.141 ± 0.108	4.335LeuPhe: 4.335 ± 0.087	6.061LeuGly: 6.061 ± 0.102	1.734LeuHis: 1.734 ± 0.051	6.907LeuIle: 6.907 ± 0.111	6.38LeuLys: 6.38 ± 0.074	9.266LeuLeu: 9.266 ± 0.143	2.401LeuMet: 2.401 ± 0.051	4.153LeuAsn: 4.153 ± 0.076	3.861LeuPro: 3.861 ± 0.076	3.381LeuGln: 3.381 ± 0.071	3.389LeuArg: 3.389 ± 0.068	6.069LeuSer: 6.069 ± 0.093	6.227LeuThr: 6.227 ± 0.088	6.381LeuVal: 6.381 ± 0.092	0.695LeuTrp: 0.695 ± 0.032	2.801LeuTyr: 2.801 ± 0.066	0.0LeuXaa: 0.0 ± 0.0
Met	2.146MetAla: 2.146 ± 0.046	0.133MetCys: 0.133 ± 0.013	1.606MetAsp: 1.606 ± 0.038	2.027MetGlu: 2.027 ± 0.052	1.035MetPhe: 1.035 ± 0.038	1.665MetGly: 1.665 ± 0.043	0.446MetHis: 0.446 ± 0.021	2.024MetIle: 2.024 ± 0.05	2.401MetLys: 2.401 ± 0.052	2.499MetLeu: 2.499 ± 0.054	0.829MetMet: 0.829 ± 0.038	1.42MetAsn: 1.42 ± 0.037	1.099MetPro: 1.099 ± 0.036	1.047MetGln: 1.047 ± 0.036	1.055MetArg: 1.055 ± 0.036	1.584MetSer: 1.584 ± 0.042	1.866MetThr: 1.866 ± 0.038	1.711MetVal: 1.711 ± 0.049	0.172MetTrp: 0.172 ± 0.013	0.697MetTyr: 0.697 ± 0.032	0.0MetXaa: 0.0 ± 0.0
Asn	3.161AsnAla: 3.161 ± 0.067	0.264AsnCys: 0.264 ± 0.016	2.39AsnAsp: 2.39 ± 0.06	3.324AsnGlu: 3.324 ± 0.073	1.892AsnPhe: 1.892 ± 0.053	3.43AsnGly: 3.43 ± 0.078	0.96AsnHis: 0.96 ± 0.037	3.464AsnIle: 3.464 ± 0.064	3.274AsnLys: 3.274 ± 0.075	4.338AsnLeu: 4.338 ± 0.078	1.29AsnMet: 1.29 ± 0.04	2.346AsnAsn: 2.346 ± 0.065	2.204AsnPro: 2.204 ± 0.058	1.931AsnGln: 1.931 ± 0.053	1.762AsnArg: 1.762 ± 0.055	2.328AsnSer: 2.328 ± 0.062	2.399AsnThr: 2.399 ± 0.056	3.063AsnVal: 3.063 ± 0.067	0.565AsnTrp: 0.565 ± 0.026	1.827AsnTyr: 1.827 ± 0.048	0.0AsnXaa: 0.0 ± 0.0
Pro	2.653ProAla: 2.653 ± 0.059	0.162ProCys: 0.162 ± 0.014	2.186ProAsp: 2.186 ± 0.058	3.107ProGlu: 3.107 ± 0.06	1.846ProPhe: 1.846 ± 0.057	2.165ProGly: 2.165 ± 0.052	0.66ProHis: 0.66 ± 0.029	2.735ProIle: 2.735 ± 0.057	2.23ProLys: 2.23 ± 0.047	3.153ProLeu: 3.153 ± 0.062	0.759ProMet: 0.759 ± 0.03	1.667ProAsn: 1.667 ± 0.049	0.805ProPro: 0.805 ± 0.033	0.9ProGln: 0.9 ± 0.035	0.985ProArg: 0.985 ± 0.032	1.984ProSer: 1.984 ± 0.052	2.209ProThr: 2.209 ± 0.053	3.033ProVal: 3.033 ± 0.076	0.297ProTrp: 0.297 ± 0.016	1.184ProTyr: 1.184 ± 0.036	0.0ProXaa: 0.0 ± 0.0
Gln	2.893GlnAla: 2.893 ± 0.061	0.123GlnCys: 0.123 ± 0.013	1.566GlnAsp: 1.566 ± 0.042	2.499GlnGlu: 2.499 ± 0.061	1.542GlnPhe: 1.542 ± 0.042	1.889GlnGly: 1.889 ± 0.045	0.525GlnHis: 0.525 ± 0.027	2.887GlnIle: 2.887 ± 0.054	2.883GlnLys: 2.883 ± 0.062	3.647GlnLeu: 3.647 ± 0.071	1.137GlnMet: 1.137 ± 0.038	1.725GlnAsn: 1.725 ± 0.047	1.05GlnPro: 1.05 ± 0.034	1.414GlnGln: 1.414 ± 0.048	1.035GlnArg: 1.035 ± 0.035	1.687GlnSer: 1.687 ± 0.045	2.3GlnThr: 2.3 ± 0.052	2.538GlnVal: 2.538 ± 0.056	0.224GlnTrp: 0.224 ± 0.016	1.004GlnTyr: 1.004 ± 0.035	0.0GlnXaa: 0.0 ± 0.0
Arg	2.614ArgAla: 2.614 ± 0.063	0.177ArgCys: 0.177 ± 0.016	2.055ArgAsp: 2.055 ± 0.06	3.086ArgGlu: 3.086 ± 0.073	1.81ArgPhe: 1.81 ± 0.049	2.154ArgGly: 2.154 ± 0.059	0.688ArgHis: 0.688 ± 0.028	2.842ArgIle: 2.842 ± 0.069	2.929ArgLys: 2.929 ± 0.061	3.47ArgLeu: 3.47 ± 0.076	1.14ArgMet: 1.14 ± 0.039	1.644ArgAsn: 1.644 ± 0.039	1.136ArgPro: 1.136 ± 0.04	1.296ArgGln: 1.296 ± 0.041	1.587ArgArg: 1.587 ± 0.049	1.835ArgSer: 1.835 ± 0.049	1.837ArgThr: 1.837 ± 0.045	2.56ArgVal: 2.56 ± 0.063	0.292ArgTrp: 0.292 ± 0.018	1.372ArgTyr: 1.372 ± 0.046	0.0ArgXaa: 0.0 ± 0.0
Ser	4.28SerAla: 4.28 ± 0.082	0.307SerCys: 0.307 ± 0.017	3.161SerAsp: 3.161 ± 0.068	4.171SerGlu: 4.171 ± 0.077	3.069SerPhe: 3.069 ± 0.066	4.612SerGly: 4.612 ± 0.088	1.0SerHis: 1.0 ± 0.032	4.515SerIle: 4.515 ± 0.082	3.851SerLys: 3.851 ± 0.075	5.559SerLeu: 5.559 ± 0.086	1.477SerMet: 1.477 ± 0.041	2.534SerAsn: 2.534 ± 0.066	1.846SerPro: 1.846 ± 0.05	1.689SerGln: 1.689 ± 0.052	2.088SerArg: 2.088 ± 0.049	3.725SerSer: 3.725 ± 0.086	3.233SerThr: 3.233 ± 0.076	4.015SerVal: 4.015 ± 0.069	0.58SerTrp: 0.58 ± 0.028	2.274SerTyr: 2.274 ± 0.05	0.0SerXaa: 0.0 ± 0.0
Thr	4.548ThrAla: 4.548 ± 0.087	0.305ThrCys: 0.305 ± 0.02	3.431ThrAsp: 3.431 ± 0.075	4.279ThrGlu: 4.279 ± 0.074	2.866ThrPhe: 2.866 ± 0.064	4.457ThrGly: 4.457 ± 0.075	0.986ThrHis: 0.986 ± 0.033	5.066ThrIle: 5.066 ± 0.092	4.313ThrLys: 4.313 ± 0.072	5.73ThrLeu: 5.73 ± 0.096	1.437ThrMet: 1.437 ± 0.039	3.071ThrAsn: 3.071 ± 0.076	2.483ThrPro: 2.483 ± 0.062	1.598ThrGln: 1.598 ± 0.042	1.867ThrArg: 1.867 ± 0.047	3.703ThrSer: 3.703 ± 0.083	3.944ThrThr: 3.944 ± 0.078	4.348ThrVal: 4.348 ± 0.083	0.521ThrTrp: 0.521 ± 0.028	2.185ThrTyr: 2.185 ± 0.057	0.0ThrXaa: 0.0 ± 0.0
Val	5.716ValAla: 5.716 ± 0.107	0.574ValCys: 0.574 ± 0.025	3.835ValAsp: 3.835 ± 0.073	4.909ValGlu: 4.909 ± 0.094	3.092ValPhe: 3.092 ± 0.066	4.555ValGly: 4.555 ± 0.083	1.194ValHis: 1.194 ± 0.046	5.694ValIle: 5.694 ± 0.096	4.631ValLys: 4.631 ± 0.077	6.696ValLeu: 6.696 ± 0.097	1.805ValMet: 1.805 ± 0.054	3.019ValAsn: 3.019 ± 0.072	2.692ValPro: 2.692 ± 0.058	2.145ValGln: 2.145 ± 0.051	2.471ValArg: 2.471 ± 0.066	4.609ValSer: 4.609 ± 0.08	4.807ValThr: 4.807 ± 0.081	5.236ValVal: 5.236 ± 0.09	0.557ValTrp: 0.557 ± 0.028	2.167ValTyr: 2.167 ± 0.055	0.0ValXaa: 0.0 ± 0.0
Trp	0.542TrpAla: 0.542 ± 0.028	0.046TrpCys: 0.046 ± 0.007	0.586TrpAsp: 0.586 ± 0.026	0.521TrpGlu: 0.521 ± 0.026	0.452TrpPhe: 0.452 ± 0.025	0.602TrpGly: 0.602 ± 0.032	0.189TrpHis: 0.189 ± 0.015	0.745TrpIle: 0.745 ± 0.03	0.7TrpLys: 0.7 ± 0.031	1.02TrpLeu: 1.02 ± 0.036	0.286TrpMet: 0.286 ± 0.018	0.518TrpAsn: 0.518 ± 0.029	0.206TrpPro: 0.206 ± 0.015	0.421TrpGln: 0.421 ± 0.024	0.387TrpArg: 0.387 ± 0.023	0.542TrpSer: 0.542 ± 0.028	0.517TrpThr: 0.517 ± 0.022	0.545TrpVal: 0.545 ± 0.028	0.123TrpTrp: 0.123 ± 0.014	0.355TrpTyr: 0.355 ± 0.026	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.256TyrAla: 2.256 ± 0.052	0.249TyrCys: 0.249 ± 0.016	2.049TyrAsp: 2.049 ± 0.051	2.279TyrGlu: 2.279 ± 0.055	1.819TyrPhe: 1.819 ± 0.05	2.277TyrGly: 2.277 ± 0.055	0.764TyrHis: 0.764 ± 0.035	2.286TyrIle: 2.286 ± 0.053	2.076TyrLys: 2.076 ± 0.055	3.483TyrLeu: 3.483 ± 0.07	0.823TyrMet: 0.823 ± 0.03	1.468TyrAsn: 1.468 ± 0.043	1.345TyrPro: 1.345 ± 0.043	1.716TyrGln: 1.716 ± 0.048	1.458TyrArg: 1.458 ± 0.042	2.007TyrSer: 2.007 ± 0.047	2.132TyrThr: 2.132 ± 0.054	2.232TyrVal: 2.232 ± 0.064	0.346TyrTrp: 0.346 ± 0.021	1.416TyrTyr: 1.416 ± 0.045	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 2844 proteins (870843 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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