Amino acid dipepetide frequency for Phytophthora rubi

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	11.686AlaAla: 11.686 ± 0.046	1.349AlaCys: 1.349 ± 0.014	5.026AlaAsp: 5.026 ± 0.022	6.028AlaGlu: 6.028 ± 0.034	3.162AlaPhe: 3.162 ± 0.017	5.633AlaGly: 5.633 ± 0.031	1.899AlaHis: 1.899 ± 0.014	3.513AlaIle: 3.513 ± 0.019	4.682AlaLys: 4.682 ± 0.027	8.66AlaLeu: 8.66 ± 0.039	2.379AlaMet: 2.379 ± 0.016	2.922AlaAsn: 2.922 ± 0.019	5.024AlaPro: 5.024 ± 0.033	3.762AlaGln: 3.762 ± 0.024	6.03AlaArg: 6.03 ± 0.026	8.181AlaSer: 8.181 ± 0.033	6.251AlaThr: 6.251 ± 0.029	6.893AlaVal: 6.893 ± 0.028	0.997AlaTrp: 0.997 ± 0.01	1.942AlaTyr: 1.942 ± 0.014	0.0AlaXaa: 0.0 ± 0.0
Cys	1.351CysAla: 1.351 ± 0.011	0.437CysCys: 0.437 ± 0.008	0.871CysAsp: 0.871 ± 0.012	0.886CysGlu: 0.886 ± 0.009	0.644CysPhe: 0.644 ± 0.008	1.223CysGly: 1.223 ± 0.012	0.378CysHis: 0.378 ± 0.006	0.722CysIle: 0.722 ± 0.009	0.697CysLys: 0.697 ± 0.008	1.386CysLeu: 1.386 ± 0.011	0.416CysMet: 0.416 ± 0.005	0.519CysAsn: 0.519 ± 0.007	0.81CysPro: 0.81 ± 0.013	0.539CysGln: 0.539 ± 0.007	1.032CysArg: 1.032 ± 0.01	1.412CysSer: 1.412 ± 0.01	0.969CysThr: 0.969 ± 0.01	1.288CysVal: 1.288 ± 0.012	0.264CysTrp: 0.264 ± 0.005	0.449CysTyr: 0.449 ± 0.007	0.0CysXaa: 0.0 ± 0.0
Asp	5.945AspAla: 5.945 ± 0.024	0.851AspCys: 0.851 ± 0.01	4.845AspAsp: 4.845 ± 0.029	5.075AspGlu: 5.075 ± 0.026	2.138AspPhe: 2.138 ± 0.013	4.147AspGly: 4.147 ± 0.021	1.164AspHis: 1.164 ± 0.009	2.284AspIle: 2.284 ± 0.015	2.384AspLys: 2.384 ± 0.017	4.778AspLeu: 4.778 ± 0.024	1.308AspMet: 1.308 ± 0.012	1.775AspAsn: 1.775 ± 0.014	2.715AspPro: 2.715 ± 0.017	1.924AspGln: 1.924 ± 0.013	3.085AspArg: 3.085 ± 0.017	4.244AspSer: 4.244 ± 0.021	2.873AspThr: 2.873 ± 0.016	4.463AspVal: 4.463 ± 0.023	0.726AspTrp: 0.726 ± 0.009	1.464AspTyr: 1.464 ± 0.012	0.0AspXaa: 0.0 ± 0.0
Glu	6.3GluAla: 6.3 ± 0.032	0.909GluCys: 0.909 ± 0.009	4.506GluAsp: 4.506 ± 0.025	6.017GluGlu: 6.017 ± 0.049	2.136GluPhe: 2.136 ± 0.015	3.495GluGly: 3.495 ± 0.021	1.47GluHis: 1.47 ± 0.013	2.569GluIle: 2.569 ± 0.017	3.503GluLys: 3.503 ± 0.027	6.568GluLeu: 6.568 ± 0.031	1.711GluMet: 1.711 ± 0.012	2.129GluAsn: 2.129 ± 0.016	2.544GluPro: 2.544 ± 0.016	2.967GluGln: 2.967 ± 0.022	4.521GluArg: 4.521 ± 0.026	4.376GluSer: 4.376 ± 0.022	3.512GluThr: 3.512 ± 0.02	4.44GluVal: 4.44 ± 0.021	0.872GluTrp: 0.872 ± 0.008	1.705GluTyr: 1.705 ± 0.013	0.0GluXaa: 0.0 ± 0.0
Phe	3.083PheAla: 3.083 ± 0.018	0.694PheCys: 0.694 ± 0.008	2.13PheAsp: 2.13 ± 0.015	2.097PheGlu: 2.097 ± 0.013	1.405PhePhe: 1.405 ± 0.013	2.479PheGly: 2.479 ± 0.019	0.856PheHis: 0.856 ± 0.009	1.341PheIle: 1.341 ± 0.01	1.425PheLys: 1.425 ± 0.011	3.193PheLeu: 3.193 ± 0.019	0.889PheMet: 0.889 ± 0.008	1.173PheAsn: 1.173 ± 0.011	1.509PhePro: 1.509 ± 0.013	1.41PheGln: 1.41 ± 0.012	2.124PheArg: 2.124 ± 0.014	2.589PheSer: 2.589 ± 0.016	1.895PheThr: 1.895 ± 0.012	2.829PheVal: 2.829 ± 0.017	0.464PheTrp: 0.464 ± 0.007	1.052PheTyr: 1.052 ± 0.01	0.0PheXaa: 0.0 ± 0.0
Gly	5.529GlyAla: 5.529 ± 0.028	1.109GlyCys: 1.109 ± 0.011	3.974GlyAsp: 3.974 ± 0.021	3.713GlyGlu: 3.713 ± 0.021	2.229GlyPhe: 2.229 ± 0.013	5.248GlyGly: 5.248 ± 0.042	1.568GlyHis: 1.568 ± 0.015	2.453GlyIle: 2.453 ± 0.016	3.044GlyLys: 3.044 ± 0.017	4.913GlyLeu: 4.913 ± 0.021	1.48GlyMet: 1.48 ± 0.011	2.15GlyAsn: 2.15 ± 0.014	2.382GlyPro: 2.382 ± 0.017	2.099GlyGln: 2.099 ± 0.015	3.948GlyArg: 3.948 ± 0.023	5.602GlySer: 5.602 ± 0.033	3.354GlyThr: 3.354 ± 0.021	4.673GlyVal: 4.673 ± 0.026	0.804GlyTrp: 0.804 ± 0.009	1.783GlyTyr: 1.783 ± 0.012	0.0GlyXaa: 0.0 ± 0.0
His	2.089HisAla: 2.089 ± 0.014	0.43HisCys: 0.43 ± 0.008	1.305HisAsp: 1.305 ± 0.011	1.566HisGlu: 1.566 ± 0.011	0.974HisPhe: 0.974 ± 0.009	1.599HisGly: 1.599 ± 0.014	0.708HisHis: 0.708 ± 0.008	0.858HisIle: 0.858 ± 0.009	0.934HisLys: 0.934 ± 0.01	2.217HisLeu: 2.217 ± 0.014	0.492HisMet: 0.492 ± 0.008	0.657HisAsn: 0.657 ± 0.008	1.271HisPro: 1.271 ± 0.01	0.97HisGln: 0.97 ± 0.01	1.663HisArg: 1.663 ± 0.013	1.653HisSer: 1.653 ± 0.011	1.052HisThr: 1.052 ± 0.01	1.818HisVal: 1.818 ± 0.014	0.342HisTrp: 0.342 ± 0.006	0.611HisTyr: 0.611 ± 0.007	0.0HisXaa: 0.0 ± 0.0
Ile	3.526IleAla: 3.526 ± 0.018	0.7IleCys: 0.7 ± 0.008	2.404IleAsp: 2.404 ± 0.015	2.323IleGlu: 2.323 ± 0.017	1.364IlePhe: 1.364 ± 0.011	2.19IleGly: 2.19 ± 0.016	0.833IleHis: 0.833 ± 0.008	1.383IleIle: 1.383 ± 0.012	1.737IleLys: 1.737 ± 0.013	3.144IleLeu: 3.144 ± 0.018	0.84IleMet: 0.84 ± 0.009	1.253IleAsn: 1.253 ± 0.012	2.029IlePro: 2.029 ± 0.014	1.485IleGln: 1.485 ± 0.012	2.361IleArg: 2.361 ± 0.014	2.83IleSer: 2.83 ± 0.015	2.001IleThr: 2.001 ± 0.015	2.91IleVal: 2.91 ± 0.018	0.428IleTrp: 0.428 ± 0.006	0.989IleTyr: 0.989 ± 0.01	0.0IleXaa: 0.0 ± 0.0
Lys	4.26LysAla: 4.26 ± 0.023	0.75LysCys: 0.75 ± 0.008	2.369LysAsp: 2.369 ± 0.017	3.184LysGlu: 3.184 ± 0.021	1.536LysPhe: 1.536 ± 0.012	2.321LysGly: 2.321 ± 0.017	1.168LysHis: 1.168 ± 0.012	1.821LysIle: 1.821 ± 0.012	3.867LysLys: 3.867 ± 0.035	4.836LysLeu: 4.836 ± 0.023	1.292LysMet: 1.292 ± 0.012	1.709LysAsn: 1.709 ± 0.013	2.38LysPro: 2.38 ± 0.019	2.188LysGln: 2.188 ± 0.016	3.946LysArg: 3.946 ± 0.023	3.385LysSer: 3.385 ± 0.02	3.076LysThr: 3.076 ± 0.017	2.938LysVal: 2.938 ± 0.016	0.724LysTrp: 0.724 ± 0.008	1.344LysTyr: 1.344 ± 0.012	0.0LysXaa: 0.0 ± 0.0
Leu	8.223LeuAla: 8.223 ± 0.033	1.513LeuCys: 1.513 ± 0.013	5.05LeuAsp: 5.05 ± 0.024	6.107LeuGlu: 6.107 ± 0.031	3.061LeuPhe: 3.061 ± 0.02	5.085LeuGly: 5.085 ± 0.026	2.468LeuHis: 2.468 ± 0.016	2.871LeuIle: 2.871 ± 0.015	4.521LeuLys: 4.521 ± 0.023	9.587LeuLeu: 9.587 ± 0.049	2.104LeuMet: 2.104 ± 0.015	2.849LeuAsn: 2.849 ± 0.017	4.858LeuPro: 4.858 ± 0.023	4.604LeuGln: 4.604 ± 0.023	6.782LeuArg: 6.782 ± 0.026	6.865LeuSer: 6.865 ± 0.028	4.764LeuThr: 4.764 ± 0.022	6.452LeuVal: 6.452 ± 0.026	1.052LeuTrp: 1.052 ± 0.01	2.156LeuTyr: 2.156 ± 0.014	0.0LeuXaa: 0.0 ± 0.0
Met	2.293MetAla: 2.293 ± 0.015	0.354MetCys: 0.354 ± 0.006	1.408MetAsp: 1.408 ± 0.012	1.74MetGlu: 1.74 ± 0.014	0.712MetPhe: 0.712 ± 0.007	1.299MetGly: 1.299 ± 0.012	0.542MetHis: 0.542 ± 0.007	0.853MetIle: 0.853 ± 0.009	1.358MetLys: 1.358 ± 0.01	2.36MetLeu: 2.36 ± 0.017	0.71MetMet: 0.71 ± 0.007	0.831MetAsn: 0.831 ± 0.008	1.161MetPro: 1.161 ± 0.011	1.108MetGln: 1.108 ± 0.012	1.565MetArg: 1.565 ± 0.012	1.769MetSer: 1.769 ± 0.014	1.485MetThr: 1.485 ± 0.011	1.527MetVal: 1.527 ± 0.013	0.308MetTrp: 0.308 ± 0.005	0.57MetTyr: 0.57 ± 0.008	0.0MetXaa: 0.0 ± 0.0
Asn	3.371AsnAla: 3.371 ± 0.018	0.557AsnCys: 0.557 ± 0.007	1.844AsnAsp: 1.844 ± 0.014	2.077AsnGlu: 2.077 ± 0.014	1.155AsnPhe: 1.155 ± 0.009	2.541AsnGly: 2.541 ± 0.016	0.651AsnHis: 0.651 ± 0.008	1.27AsnIle: 1.27 ± 0.013	1.47AsnLys: 1.47 ± 0.013	2.603AsnLeu: 2.603 ± 0.016	0.789AsnMet: 0.789 ± 0.008	1.193AsnAsn: 1.193 ± 0.012	1.69AsnPro: 1.69 ± 0.014	1.208AsnGln: 1.208 ± 0.011	1.867AsnArg: 1.867 ± 0.013	2.414AsnSer: 2.414 ± 0.018	1.757AsnThr: 1.757 ± 0.013	2.354AsnVal: 2.354 ± 0.014	0.41AsnTrp: 0.41 ± 0.006	0.897AsnTyr: 0.897 ± 0.01	0.0AsnXaa: 0.0 ± 0.0
Pro	5.17ProAla: 5.17 ± 0.031	0.608ProCys: 0.608 ± 0.009	2.692ProAsp: 2.692 ± 0.017	3.192ProGlu: 3.192 ± 0.02	1.642ProPhe: 1.642 ± 0.011	2.886ProGly: 2.886 ± 0.018	1.101ProHis: 1.101 ± 0.009	1.647ProIle: 1.647 ± 0.011	2.239ProLys: 2.239 ± 0.015	4.032ProLeu: 4.032 ± 0.022	1.156ProMet: 1.156 ± 0.012	1.542ProAsn: 1.542 ± 0.014	3.946ProPro: 3.946 ± 0.03	1.909ProGln: 1.909 ± 0.014	3.445ProArg: 3.445 ± 0.022	4.898ProSer: 4.898 ± 0.027	3.786ProThr: 3.786 ± 0.025	3.682ProVal: 3.682 ± 0.02	0.56ProTrp: 0.56 ± 0.007	0.986ProTyr: 0.986 ± 0.009	0.0ProXaa: 0.0 ± 0.0
Gln	3.695GlnAla: 3.695 ± 0.019	0.587GlnCys: 0.587 ± 0.008	2.088GlnAsp: 2.088 ± 0.015	2.78GlnGlu: 2.78 ± 0.02	1.298GlnPhe: 1.298 ± 0.011	2.028GlnGly: 2.028 ± 0.013	1.171GlnHis: 1.171 ± 0.011	1.476GlnIle: 1.476 ± 0.012	1.915GlnLys: 1.915 ± 0.014	4.376GlnLeu: 4.376 ± 0.022	0.998GlnMet: 0.998 ± 0.009	1.186GlnAsn: 1.186 ± 0.011	1.951GlnPro: 1.951 ± 0.015	3.092GlnGln: 3.092 ± 0.031	3.462GlnArg: 3.462 ± 0.023	2.78GlnSer: 2.78 ± 0.018	2.309GlnThr: 2.309 ± 0.015	2.734GlnVal: 2.734 ± 0.015	0.639GlnTrp: 0.639 ± 0.008	1.002GlnTyr: 1.002 ± 0.01	0.0GlnXaa: 0.0 ± 0.0
Arg	5.922ArgAla: 5.922 ± 0.026	1.119ArgCys: 1.119 ± 0.011	3.524ArgAsp: 3.524 ± 0.02	4.338ArgGlu: 4.338 ± 0.024	2.424ArgPhe: 2.424 ± 0.016	3.922ArgGly: 3.922 ± 0.02	1.815ArgHis: 1.815 ± 0.013	2.432ArgIle: 2.432 ± 0.014	3.512ArgLys: 3.512 ± 0.018	6.305ArgLeu: 6.305 ± 0.03	1.597ArgMet: 1.597 ± 0.013	2.046ArgAsn: 2.046 ± 0.014	3.134ArgPro: 3.134 ± 0.021	3.157ArgGln: 3.157 ± 0.019	6.358ArgArg: 6.358 ± 0.039	5.436ArgSer: 5.436 ± 0.027	3.453ArgThr: 3.453 ± 0.021	4.722ArgVal: 4.722 ± 0.02	0.991ArgTrp: 0.991 ± 0.009	1.707ArgTyr: 1.707 ± 0.013	0.0ArgXaa: 0.0 ± 0.0
Ser	7.651SerAla: 7.651 ± 0.028	1.258SerCys: 1.258 ± 0.012	4.796SerAsp: 4.796 ± 0.026	4.501SerGlu: 4.501 ± 0.029	2.725SerPhe: 2.725 ± 0.018	5.641SerGly: 5.641 ± 0.032	1.55SerHis: 1.55 ± 0.012	2.881SerIle: 2.881 ± 0.016	3.704SerLys: 3.704 ± 0.02	6.409SerLeu: 6.409 ± 0.029	1.812SerMet: 1.812 ± 0.014	2.559SerAsn: 2.559 ± 0.016	4.615SerPro: 4.615 ± 0.026	2.58SerGln: 2.58 ± 0.015	5.064SerArg: 5.064 ± 0.029	9.76SerSer: 9.76 ± 0.055	5.804SerThr: 5.804 ± 0.035	5.452SerVal: 5.452 ± 0.027	1.007SerTrp: 1.007 ± 0.01	1.742SerTyr: 1.742 ± 0.014	0.0SerXaa: 0.0 ± 0.0
Thr	5.737ThrAla: 5.737 ± 0.027	0.945ThrCys: 0.945 ± 0.009	2.863ThrAsp: 2.863 ± 0.017	3.364ThrGlu: 3.364 ± 0.021	1.95ThrPhe: 1.95 ± 0.017	3.718ThrGly: 3.718 ± 0.026	1.202ThrHis: 1.202 ± 0.011	2.245ThrIle: 2.245 ± 0.017	2.927ThrLys: 2.927 ± 0.019	5.137ThrLeu: 5.137 ± 0.025	1.314ThrMet: 1.314 ± 0.011	1.903ThrAsn: 1.903 ± 0.016	4.078ThrPro: 4.078 ± 0.028	2.196ThrGln: 2.196 ± 0.014	3.702ThrArg: 3.702 ± 0.021	5.374ThrSer: 5.374 ± 0.028	4.51ThrThr: 4.51 ± 0.036	3.881ThrVal: 3.881 ± 0.022	0.72ThrTrp: 0.72 ± 0.008	1.304ThrTyr: 1.304 ± 0.012	0.0ThrXaa: 0.0 ± 0.0
Val	7.036ValAla: 7.036 ± 0.03	1.331ValCys: 1.331 ± 0.012	4.403ValAsp: 4.403 ± 0.022	4.913ValGlu: 4.913 ± 0.023	2.598ValPhe: 2.598 ± 0.018	4.176ValGly: 4.176 ± 0.023	1.709ValHis: 1.709 ± 0.012	2.652ValIle: 2.652 ± 0.016	3.413ValLys: 3.413 ± 0.017	6.797ValLeu: 6.797 ± 0.029	1.677ValMet: 1.677 ± 0.012	2.319ValAsn: 2.319 ± 0.014	3.492ValPro: 3.492 ± 0.02	2.882ValGln: 2.882 ± 0.016	4.34ValArg: 4.34 ± 0.02	5.222ValSer: 5.222 ± 0.027	4.148ValThr: 4.148 ± 0.023	6.008ValVal: 6.008 ± 0.033	0.857ValTrp: 0.857 ± 0.007	1.834ValTyr: 1.834 ± 0.014	0.0ValXaa: 0.0 ± 0.0
Trp	0.905TrpAla: 0.905 ± 0.01	0.241TrpCys: 0.241 ± 0.005	0.658TrpAsp: 0.658 ± 0.008	0.73TrpGlu: 0.73 ± 0.008	0.453TrpPhe: 0.453 ± 0.006	0.712TrpGly: 0.712 ± 0.009	0.299TrpHis: 0.299 ± 0.006	0.565TrpIle: 0.565 ± 0.007	0.76TrpLys: 0.76 ± 0.008	1.356TrpLeu: 1.356 ± 0.011	0.397TrpMet: 0.397 ± 0.006	0.519TrpAsn: 0.519 ± 0.007	0.493TrpPro: 0.493 ± 0.007	0.509TrpGln: 0.509 ± 0.006	0.979TrpArg: 0.979 ± 0.009	0.957TrpSer: 0.957 ± 0.01	0.789TrpThr: 0.789 ± 0.008	0.875TrpVal: 0.875 ± 0.008	0.228TrpTrp: 0.228 ± 0.005	0.347TrpTyr: 0.347 ± 0.006	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.249TyrAla: 2.249 ± 0.015	0.55TyrCys: 0.55 ± 0.007	1.433TyrAsp: 1.433 ± 0.012	1.617TyrGlu: 1.617 ± 0.012	1.03TyrPhe: 1.03 ± 0.011	1.709TyrGly: 1.709 ± 0.013	0.656TyrHis: 0.656 ± 0.008	0.896TyrIle: 0.896 ± 0.009	1.003TyrLys: 1.003 ± 0.011	2.317TyrLeu: 2.317 ± 0.013	0.591TyrMet: 0.591 ± 0.007	0.882TyrAsn: 0.882 ± 0.01	1.037TyrPro: 1.037 ± 0.01	0.98TyrGln: 0.98 ± 0.009	1.638TyrArg: 1.638 ± 0.013	1.763TyrSer: 1.763 ± 0.013	1.284TyrThr: 1.284 ± 0.013	1.866TyrVal: 1.866 ± 0.014	0.382TyrTrp: 0.382 ± 0.006	0.84TyrTyr: 0.84 ± 0.01	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 35379 proteins (12151655 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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