Amino acid dipepetide frequency for Paraliobacillus ryukyuensis

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	5.113AlaAla: 5.113 ± 0.103	0.528AlaCys: 0.528 ± 0.025	3.607AlaAsp: 3.607 ± 0.074	4.41AlaGlu: 4.41 ± 0.075	3.279AlaPhe: 3.279 ± 0.064	4.834AlaGly: 4.834 ± 0.09	1.287AlaHis: 1.287 ± 0.036	6.486AlaIle: 6.486 ± 0.095	4.796AlaLys: 4.796 ± 0.096	7.168AlaLeu: 7.168 ± 0.102	2.157AlaMet: 2.157 ± 0.056	3.372AlaAsn: 3.372 ± 0.062	1.952AlaPro: 1.952 ± 0.049	2.383AlaGln: 2.383 ± 0.055	2.451AlaArg: 2.451 ± 0.063	4.35AlaSer: 4.35 ± 0.076	4.408AlaThr: 4.408 ± 0.103	4.897AlaVal: 4.897 ± 0.083	0.566AlaTrp: 0.566 ± 0.025	2.523AlaTyr: 2.523 ± 0.06	0.0AlaXaa: 0.0 ± 0.0
Cys	0.35CysAla: 0.35 ± 0.021	0.066CysCys: 0.066 ± 0.01	0.342CysAsp: 0.342 ± 0.021	0.327CysGlu: 0.327 ± 0.02	0.298CysPhe: 0.298 ± 0.02	0.551CysGly: 0.551 ± 0.031	0.201CysHis: 0.201 ± 0.014	0.472CysIle: 0.472 ± 0.025	0.302CysLys: 0.302 ± 0.019	0.593CysLeu: 0.593 ± 0.028	0.165CysMet: 0.165 ± 0.014	0.264CysAsn: 0.264 ± 0.02	0.285CysPro: 0.285 ± 0.02	0.231CysGln: 0.231 ± 0.015	0.198CysArg: 0.198 ± 0.012	0.357CysSer: 0.357 ± 0.02	0.334CysThr: 0.334 ± 0.02	0.351CysVal: 0.351 ± 0.021	0.056CysTrp: 0.056 ± 0.009	0.259CysTyr: 0.259 ± 0.019	0.0CysXaa: 0.0 ± 0.0
Asp	3.416AspAla: 3.416 ± 0.07	0.334AspCys: 0.334 ± 0.019	2.769AspAsp: 2.769 ± 0.072	4.286AspGlu: 4.286 ± 0.075	2.455AspPhe: 2.455 ± 0.048	3.386AspGly: 3.386 ± 0.066	1.234AspHis: 1.234 ± 0.039	4.324AspIle: 4.324 ± 0.078	3.524AspLys: 3.524 ± 0.06	5.069AspLeu: 5.069 ± 0.086	1.474AspMet: 1.474 ± 0.038	2.45AspAsn: 2.45 ± 0.058	2.009AspPro: 2.009 ± 0.054	2.968AspGln: 2.968 ± 0.069	2.259AspArg: 2.259 ± 0.043	2.563AspSer: 2.563 ± 0.059	2.873AspThr: 2.873 ± 0.052	4.08AspVal: 4.08 ± 0.073	0.665AspTrp: 0.665 ± 0.03	2.402AspTyr: 2.402 ± 0.052	0.0AspXaa: 0.0 ± 0.0
Glu	5.52GluAla: 5.52 ± 0.08	0.265GluCys: 0.265 ± 0.019	3.96GluAsp: 3.96 ± 0.076	6.582GluGlu: 6.582 ± 0.122	2.006GluPhe: 2.006 ± 0.048	3.844GluGly: 3.844 ± 0.075	1.425GluHis: 1.425 ± 0.038	5.33GluIle: 5.33 ± 0.077	5.954GluLys: 5.954 ± 0.084	6.526GluLeu: 6.526 ± 0.094	2.206GluMet: 2.206 ± 0.052	3.665GluAsn: 3.665 ± 0.072	1.93GluPro: 1.93 ± 0.045	4.224GluGln: 4.224 ± 0.09	3.178GluArg: 3.178 ± 0.068	3.278GluSer: 3.278 ± 0.059	4.153GluThr: 4.153 ± 0.074	5.058GluVal: 5.058 ± 0.089	0.738GluTrp: 0.738 ± 0.028	1.885GluTyr: 1.885 ± 0.051	0.0GluXaa: 0.0 ± 0.0
Phe	2.921PheAla: 2.921 ± 0.065	0.282PheCys: 0.282 ± 0.019	2.607PheAsp: 2.607 ± 0.062	2.643PheGlu: 2.643 ± 0.052	2.296PhePhe: 2.296 ± 0.066	3.089PheGly: 3.089 ± 0.062	0.966PheHis: 0.966 ± 0.038	3.863PheIle: 3.863 ± 0.087	2.151PheLys: 2.151 ± 0.054	4.334PheLeu: 4.334 ± 0.083	1.155PheMet: 1.155 ± 0.04	1.946PheAsn: 1.946 ± 0.046	1.565PhePro: 1.565 ± 0.047	1.809PheGln: 1.809 ± 0.048	1.458PheArg: 1.458 ± 0.04	3.127PheSer: 3.127 ± 0.065	2.619PheThr: 2.619 ± 0.059	3.201PheVal: 3.201 ± 0.071	0.459PheTrp: 0.459 ± 0.025	1.739PheTyr: 1.739 ± 0.046	0.0PheXaa: 0.0 ± 0.0
Gly	4.625GlyAla: 4.625 ± 0.121	0.522GlyCys: 0.522 ± 0.023	3.303GlyAsp: 3.303 ± 0.062	4.271GlyGlu: 4.271 ± 0.083	3.164GlyPhe: 3.164 ± 0.066	4.234GlyGly: 4.234 ± 0.077	1.213GlyHis: 1.213 ± 0.044	5.674GlyIle: 5.674 ± 0.083	4.488GlyLys: 4.488 ± 0.071	6.098GlyLeu: 6.098 ± 0.085	1.941GlyMet: 1.941 ± 0.053	2.795GlyAsn: 2.795 ± 0.059	1.608GlyPro: 1.608 ± 0.088	2.114GlyGln: 2.114 ± 0.049	2.25GlyArg: 2.25 ± 0.051	3.738GlySer: 3.738 ± 0.073	3.825GlyThr: 3.825 ± 0.071	4.724GlyVal: 4.724 ± 0.081	0.731GlyTrp: 0.731 ± 0.032	2.869GlyTyr: 2.869 ± 0.057	0.0GlyXaa: 0.0 ± 0.0
His	1.496HisAla: 1.496 ± 0.041	0.182HisCys: 0.182 ± 0.015	1.085HisAsp: 1.085 ± 0.039	1.217HisGlu: 1.217 ± 0.04	1.017HisPhe: 1.017 ± 0.033	1.386HisGly: 1.386 ± 0.044	0.737HisHis: 0.737 ± 0.033	1.582HisIle: 1.582 ± 0.048	0.976HisLys: 0.976 ± 0.033	2.118HisLeu: 2.118 ± 0.055	0.546HisMet: 0.546 ± 0.025	0.909HisAsn: 0.909 ± 0.035	1.051HisPro: 1.051 ± 0.032	1.058HisGln: 1.058 ± 0.037	0.85HisArg: 0.85 ± 0.034	1.137HisSer: 1.137 ± 0.036	1.167HisThr: 1.167 ± 0.038	1.506HisVal: 1.506 ± 0.049	0.224HisTrp: 0.224 ± 0.015	0.934HisTyr: 0.934 ± 0.03	0.0HisXaa: 0.0 ± 0.0
Ile	6.57IleAla: 6.57 ± 0.094	0.577IleCys: 0.577 ± 0.027	4.97IleAsp: 4.97 ± 0.082	5.705IleGlu: 5.705 ± 0.091	3.3IlePhe: 3.3 ± 0.077	6.089IleGly: 6.089 ± 0.108	1.655IleHis: 1.655 ± 0.045	6.495IleIle: 6.495 ± 0.093	4.697IleLys: 4.697 ± 0.085	6.892IleLeu: 6.892 ± 0.097	1.746IleMet: 1.746 ± 0.047	3.82IleAsn: 3.82 ± 0.059	3.242IlePro: 3.242 ± 0.052	3.209IleGln: 3.209 ± 0.069	2.952IleArg: 2.952 ± 0.058	5.068IleSer: 5.068 ± 0.086	5.078IleThr: 5.078 ± 0.081	5.646IleVal: 5.646 ± 0.092	0.672IleTrp: 0.672 ± 0.036	2.613IleTyr: 2.613 ± 0.06	0.0IleXaa: 0.0 ± 0.0
Lys	4.385LysAla: 4.385 ± 0.073	0.241LysCys: 0.241 ± 0.017	3.65LysAsp: 3.65 ± 0.066	6.153LysGlu: 6.153 ± 0.087	1.742LysPhe: 1.742 ± 0.052	3.86LysGly: 3.86 ± 0.066	1.513LysHis: 1.513 ± 0.044	4.358LysIle: 4.358 ± 0.083	5.429LysLys: 5.429 ± 0.091	5.466LysLeu: 5.466 ± 0.081	1.978LysMet: 1.978 ± 0.044	3.327LysAsn: 3.327 ± 0.066	2.047LysPro: 2.047 ± 0.047	4.636LysGln: 4.636 ± 0.086	3.162LysArg: 3.162 ± 0.063	3.169LysSer: 3.169 ± 0.063	3.572LysThr: 3.572 ± 0.071	4.244LysVal: 4.244 ± 0.079	0.663LysTrp: 0.663 ± 0.033	2.042LysTyr: 2.042 ± 0.05	0.0LysXaa: 0.0 ± 0.0
Leu	7.474LeuAla: 7.474 ± 0.107	0.544LeuCys: 0.544 ± 0.026	5.04LeuAsp: 5.04 ± 0.081	6.348LeuGlu: 6.348 ± 0.079	4.852LeuPhe: 4.852 ± 0.091	5.9LeuGly: 5.9 ± 0.091	2.038LeuHis: 2.038 ± 0.049	7.382LeuIle: 7.382 ± 0.111	5.718LeuLys: 5.718 ± 0.071	9.949LeuLeu: 9.949 ± 0.171	2.406LeuMet: 2.406 ± 0.054	4.191LeuAsn: 4.191 ± 0.079	3.712LeuPro: 3.712 ± 0.069	4.144LeuGln: 4.144 ± 0.082	3.396LeuArg: 3.396 ± 0.062	6.381LeuSer: 6.381 ± 0.09	5.976LeuThr: 5.976 ± 0.085	6.225LeuVal: 6.225 ± 0.092	0.766LeuTrp: 0.766 ± 0.029	3.081LeuTyr: 3.081 ± 0.058	0.0LeuXaa: 0.0 ± 0.0
Met	1.866MetAla: 1.866 ± 0.051	0.125MetCys: 0.125 ± 0.012	1.544MetAsp: 1.544 ± 0.047	2.003MetGlu: 2.003 ± 0.05	1.035MetPhe: 1.035 ± 0.033	1.624MetGly: 1.624 ± 0.042	0.561MetHis: 0.561 ± 0.026	2.207MetIle: 2.207 ± 0.058	2.32MetLys: 2.32 ± 0.05	2.569MetLeu: 2.569 ± 0.065	0.848MetMet: 0.848 ± 0.032	1.563MetAsn: 1.563 ± 0.043	0.962MetPro: 0.962 ± 0.043	1.277MetGln: 1.277 ± 0.037	1.071MetArg: 1.071 ± 0.037	1.527MetSer: 1.527 ± 0.045	1.581MetThr: 1.581 ± 0.044	1.8MetVal: 1.8 ± 0.054	0.161MetTrp: 0.161 ± 0.015	0.72MetTyr: 0.72 ± 0.028	0.0MetXaa: 0.0 ± 0.0
Asn	2.871AsnAla: 2.871 ± 0.068	0.249AsnCys: 0.249 ± 0.017	2.643AsnAsp: 2.643 ± 0.056	3.743AsnGlu: 3.743 ± 0.072	1.739AsnPhe: 1.739 ± 0.046	3.288AsnGly: 3.288 ± 0.071	1.209AsnHis: 1.209 ± 0.041	3.58AsnIle: 3.58 ± 0.076	3.33AsnLys: 3.33 ± 0.071	3.86AsnLeu: 3.86 ± 0.065	1.291AsnMet: 1.291 ± 0.045	2.574AsnAsn: 2.574 ± 0.064	2.002AsnPro: 2.002 ± 0.046	2.885AsnGln: 2.885 ± 0.067	2.086AsnArg: 2.086 ± 0.049	2.215AsnSer: 2.215 ± 0.05	2.438AsnThr: 2.438 ± 0.052	3.148AsnVal: 3.148 ± 0.062	0.608AsnTrp: 0.608 ± 0.028	1.952AsnTyr: 1.952 ± 0.048	0.0AsnXaa: 0.0 ± 0.0
Pro	2.194ProAla: 2.194 ± 0.057	0.181ProCys: 0.181 ± 0.014	1.909ProAsp: 1.909 ± 0.048	2.547ProGlu: 2.547 ± 0.054	1.915ProPhe: 1.915 ± 0.049	1.985ProGly: 1.985 ± 0.059	0.695ProHis: 0.695 ± 0.03	3.009ProIle: 3.009 ± 0.06	2.079ProLys: 2.079 ± 0.048	3.172ProLeu: 3.172 ± 0.051	0.816ProMet: 0.816 ± 0.033	1.857ProAsn: 1.857 ± 0.043	0.831ProPro: 0.831 ± 0.036	1.075ProGln: 1.075 ± 0.039	0.945ProArg: 0.945 ± 0.036	2.24ProSer: 2.24 ± 0.051	2.307ProThr: 2.307 ± 0.092	2.509ProVal: 2.509 ± 0.053	0.323ProTrp: 0.323 ± 0.021	1.35ProTyr: 1.35 ± 0.043	0.0ProXaa: 0.0 ± 0.0
Gln	3.966GlnAla: 3.966 ± 0.074	0.17GlnCys: 0.17 ± 0.013	2.176GlnAsp: 2.176 ± 0.051	3.375GlnGlu: 3.375 ± 0.076	1.826GlnPhe: 1.826 ± 0.05	2.403GlnGly: 2.403 ± 0.049	0.989GlnHis: 0.989 ± 0.038	3.165GlnIle: 3.165 ± 0.054	2.873GlnLys: 2.873 ± 0.061	5.274GlnLeu: 5.274 ± 0.091	1.339GlnMet: 1.339 ± 0.038	1.841GlnAsn: 1.841 ± 0.046	1.499GlnPro: 1.499 ± 0.046	2.888GlnGln: 2.888 ± 0.08	1.648GlnArg: 1.648 ± 0.049	2.606GlnSer: 2.606 ± 0.058	2.851GlnThr: 2.851 ± 0.062	3.062GlnVal: 3.062 ± 0.063	0.494GlnTrp: 0.494 ± 0.025	1.454GlnTyr: 1.454 ± 0.041	0.0GlnXaa: 0.0 ± 0.0
Arg	2.338ArgAla: 2.338 ± 0.052	0.203ArgCys: 0.203 ± 0.015	1.931ArgAsp: 1.931 ± 0.046	2.84ArgGlu: 2.84 ± 0.06	1.77ArgPhe: 1.77 ± 0.044	2.056ArgGly: 2.056 ± 0.048	0.689ArgHis: 0.689 ± 0.031	2.961ArgIle: 2.961 ± 0.056	2.917ArgLys: 2.917 ± 0.058	3.807ArgLeu: 3.807 ± 0.067	1.206ArgMet: 1.206 ± 0.041	1.834ArgAsn: 1.834 ± 0.049	1.203ArgPro: 1.203 ± 0.042	1.584ArgGln: 1.584 ± 0.045	1.677ArgArg: 1.677 ± 0.053	2.125ArgSer: 2.125 ± 0.055	2.086ArgThr: 2.086 ± 0.05	2.481ArgVal: 2.481 ± 0.046	0.395ArgTrp: 0.395 ± 0.019	1.663ArgTyr: 1.663 ± 0.046	0.0ArgXaa: 0.0 ± 0.0
Ser	3.401SerAla: 3.401 ± 0.072	0.314SerCys: 0.314 ± 0.021	3.128SerAsp: 3.128 ± 0.069	3.754SerGlu: 3.754 ± 0.076	3.184SerPhe: 3.184 ± 0.065	4.007SerGly: 4.007 ± 0.067	1.118SerHis: 1.118 ± 0.036	5.336SerIle: 5.336 ± 0.079	3.658SerLys: 3.658 ± 0.066	5.767SerLeu: 5.767 ± 0.098	1.681SerMet: 1.681 ± 0.047	2.947SerAsn: 2.947 ± 0.063	1.851SerPro: 1.851 ± 0.05	2.04SerGln: 2.04 ± 0.046	1.91SerArg: 1.91 ± 0.043	3.752SerSer: 3.752 ± 0.08	3.328SerThr: 3.328 ± 0.064	4.056SerVal: 4.056 ± 0.074	0.582SerTrp: 0.582 ± 0.025	2.347SerTyr: 2.347 ± 0.049	0.0SerXaa: 0.0 ± 0.0
Thr	3.989ThrAla: 3.989 ± 0.081	0.361ThrCys: 0.361 ± 0.021	3.168ThrAsp: 3.168 ± 0.059	3.786ThrGlu: 3.786 ± 0.06	2.904ThrPhe: 2.904 ± 0.06	4.197ThrGly: 4.197 ± 0.177	1.112ThrHis: 1.112 ± 0.039	5.408ThrIle: 5.408 ± 0.08	3.694ThrLys: 3.694 ± 0.071	5.582ThrLeu: 5.582 ± 0.089	1.474ThrMet: 1.474 ± 0.041	3.064ThrAsn: 3.064 ± 0.065	2.186ThrPro: 2.186 ± 0.048	1.88ThrGln: 1.88 ± 0.051	1.8ThrArg: 1.8 ± 0.038	3.596ThrSer: 3.596 ± 0.073	3.637ThrThr: 3.637 ± 0.072	4.272ThrVal: 4.272 ± 0.077	0.584ThrTrp: 0.584 ± 0.024	2.326ThrTyr: 2.326 ± 0.057	0.0ThrXaa: 0.0 ± 0.0
Val	5.29ValAla: 5.29 ± 0.09	0.52ValCys: 0.52 ± 0.026	4.118ValAsp: 4.118 ± 0.089	4.82ValGlu: 4.82 ± 0.084	3.042ValPhe: 3.042 ± 0.067	4.464ValGly: 4.464 ± 0.081	1.312ValHis: 1.312 ± 0.046	5.962ValIle: 5.962 ± 0.094	4.222ValLys: 4.222 ± 0.071	6.52ValLeu: 6.52 ± 0.088	1.781ValMet: 1.781 ± 0.044	3.206ValAsn: 3.206 ± 0.065	2.413ValPro: 2.413 ± 0.05	2.535ValGln: 2.535 ± 0.057	2.474ValArg: 2.474 ± 0.061	4.453ValSer: 4.453 ± 0.071	4.338ValThr: 4.338 ± 0.068	5.073ValVal: 5.073 ± 0.083	0.542ValTrp: 0.542 ± 0.026	2.247ValTyr: 2.247 ± 0.048	0.0ValXaa: 0.0 ± 0.0
Trp	0.489TrpAla: 0.489 ± 0.026	0.055TrpCys: 0.055 ± 0.007	0.518TrpAsp: 0.518 ± 0.024	0.64TrpGlu: 0.64 ± 0.028	0.538TrpPhe: 0.538 ± 0.023	0.577TrpGly: 0.577 ± 0.031	0.21TrpHis: 0.21 ± 0.016	0.838TrpIle: 0.838 ± 0.03	0.69TrpLys: 0.69 ± 0.029	1.179TrpLeu: 1.179 ± 0.042	0.306TrpMet: 0.306 ± 0.017	0.553TrpAsn: 0.553 ± 0.026	0.203TrpPro: 0.203 ± 0.016	0.425TrpGln: 0.425 ± 0.024	0.383TrpArg: 0.383 ± 0.021	0.586TrpSer: 0.586 ± 0.026	0.48TrpThr: 0.48 ± 0.026	0.599TrpVal: 0.599 ± 0.027	0.129TrpTrp: 0.129 ± 0.012	0.367TrpTyr: 0.367 ± 0.022	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.29TyrAla: 2.29 ± 0.048	0.281TyrCys: 0.281 ± 0.019	2.073TyrAsp: 2.073 ± 0.061	2.277TyrGlu: 2.277 ± 0.043	1.87TyrPhe: 1.87 ± 0.051	2.414TyrGly: 2.414 ± 0.055	1.015TyrHis: 1.015 ± 0.034	2.565TyrIle: 2.565 ± 0.058	1.819TyrLys: 1.819 ± 0.048	3.578TyrLeu: 3.578 ± 0.067	0.848TyrMet: 0.848 ± 0.033	1.531TyrAsn: 1.531 ± 0.042	1.385TyrPro: 1.385 ± 0.039	2.535TyrGln: 2.535 ± 0.063	1.618TyrArg: 1.618 ± 0.044	1.897TyrSer: 1.897 ± 0.046	1.968TyrThr: 1.968 ± 0.048	2.4TyrVal: 2.4 ± 0.053	0.408TyrTrp: 0.408 ± 0.025	1.667TyrTyr: 1.667 ± 0.049	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 3097 proteins (874981 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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