Amino acid dipepetide frequency for Phytophthora cactorum

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	9.894AlaAla: 9.894 ± 0.053	1.284AlaCys: 1.284 ± 0.014	4.414AlaAsp: 4.414 ± 0.021	5.36AlaGlu: 5.36 ± 0.035	3.197AlaPhe: 3.197 ± 0.023	4.921AlaGly: 4.921 ± 0.032	1.724AlaHis: 1.724 ± 0.015	3.801AlaIle: 3.801 ± 0.022	4.659AlaLys: 4.659 ± 0.028	8.494AlaLeu: 8.494 ± 0.037	2.308AlaMet: 2.308 ± 0.016	3.004AlaAsn: 3.004 ± 0.021	4.173AlaPro: 4.173 ± 0.033	3.535AlaGln: 3.535 ± 0.022	4.981AlaArg: 4.981 ± 0.03	7.71AlaSer: 7.71 ± 0.035	5.88AlaThr: 5.88 ± 0.032	6.379AlaVal: 6.379 ± 0.029	0.929AlaTrp: 0.929 ± 0.01	1.94AlaTyr: 1.94 ± 0.015	0.003AlaXaa: 0.003 ± 0.001
Cys	1.294CysAla: 1.294 ± 0.014	0.397CysCys: 0.397 ± 0.008	0.872CysAsp: 0.872 ± 0.011	0.933CysGlu: 0.933 ± 0.011	0.686CysPhe: 0.686 ± 0.009	1.208CysGly: 1.208 ± 0.013	0.377CysHis: 0.377 ± 0.007	0.769CysIle: 0.769 ± 0.009	0.715CysLys: 0.715 ± 0.01	1.369CysLeu: 1.369 ± 0.014	0.402CysMet: 0.402 ± 0.007	0.543CysAsn: 0.543 ± 0.009	0.748CysPro: 0.748 ± 0.015	0.563CysGln: 0.563 ± 0.009	0.979CysArg: 0.979 ± 0.013	1.422CysSer: 1.422 ± 0.015	0.969CysThr: 0.969 ± 0.014	1.267CysVal: 1.267 ± 0.012	0.229CysTrp: 0.229 ± 0.005	0.465CysTyr: 0.465 ± 0.008	0.001CysXaa: 0.001 ± 0.0
Asp	5.35AspAla: 5.35 ± 0.027	0.837AspCys: 0.837 ± 0.011	4.405AspAsp: 4.405 ± 0.034	4.901AspGlu: 4.901 ± 0.033	2.175AspPhe: 2.175 ± 0.016	3.965AspGly: 3.965 ± 0.03	1.128AspHis: 1.128 ± 0.011	2.511AspIle: 2.511 ± 0.018	2.56AspLys: 2.56 ± 0.018	4.75AspLeu: 4.75 ± 0.024	1.335AspMet: 1.335 ± 0.014	1.953AspAsn: 1.953 ± 0.017	2.544AspPro: 2.544 ± 0.02	1.906AspGln: 1.906 ± 0.016	2.782AspArg: 2.782 ± 0.02	4.267AspSer: 4.267 ± 0.025	3.053AspThr: 3.053 ± 0.021	4.411AspVal: 4.411 ± 0.022	0.654AspTrp: 0.654 ± 0.009	1.496AspTyr: 1.496 ± 0.015	0.001AspXaa: 0.001 ± 0.0
Glu	5.926GluAla: 5.926 ± 0.035	0.918GluCys: 0.918 ± 0.01	4.385GluAsp: 4.385 ± 0.029	6.127GluGlu: 6.127 ± 0.055	2.234GluPhe: 2.234 ± 0.018	3.306GluGly: 3.306 ± 0.022	1.51GluHis: 1.51 ± 0.014	2.954GluIle: 2.954 ± 0.02	3.861GluLys: 3.861 ± 0.029	6.663GluLeu: 6.663 ± 0.045	1.802GluMet: 1.802 ± 0.015	2.516GluAsn: 2.516 ± 0.02	2.31GluPro: 2.31 ± 0.02	3.031GluGln: 3.031 ± 0.026	4.211GluArg: 4.211 ± 0.028	4.45GluSer: 4.45 ± 0.023	3.682GluThr: 3.682 ± 0.022	4.219GluVal: 4.219 ± 0.024	0.769GluTrp: 0.769 ± 0.01	1.673GluTyr: 1.673 ± 0.014	0.002GluXaa: 0.002 ± 0.0
Phe	3.075PheAla: 3.075 ± 0.021	0.722PheCys: 0.722 ± 0.01	2.248PheAsp: 2.248 ± 0.018	2.252PheGlu: 2.252 ± 0.018	1.585PhePhe: 1.585 ± 0.017	2.699PheGly: 2.699 ± 0.022	0.928PheHis: 0.928 ± 0.009	1.536PheIle: 1.536 ± 0.015	1.541PheLys: 1.541 ± 0.014	3.511PheLeu: 3.511 ± 0.025	0.917PheMet: 0.917 ± 0.01	1.307PheAsn: 1.307 ± 0.013	1.627PhePro: 1.627 ± 0.014	1.509PheGln: 1.509 ± 0.014	2.072PheArg: 2.072 ± 0.015	2.956PheSer: 2.956 ± 0.02	2.093PheThr: 2.093 ± 0.017	2.909PheVal: 2.909 ± 0.021	0.457PheTrp: 0.457 ± 0.008	1.16PheTyr: 1.16 ± 0.013	0.001PheXaa: 0.001 ± 0.0
Gly	4.974GlyAla: 4.974 ± 0.028	1.078GlyCys: 1.078 ± 0.013	3.783GlyAsp: 3.783 ± 0.027	3.608GlyGlu: 3.608 ± 0.021	2.391GlyPhe: 2.391 ± 0.019	4.843GlyGly: 4.843 ± 0.051	1.442GlyHis: 1.442 ± 0.017	2.756GlyIle: 2.756 ± 0.019	3.198GlyLys: 3.198 ± 0.022	4.875GlyLeu: 4.875 ± 0.024	1.507GlyMet: 1.507 ± 0.015	2.441GlyAsn: 2.441 ± 0.019	2.05GlyPro: 2.05 ± 0.017	1.978GlyGln: 1.978 ± 0.015	3.404GlyArg: 3.404 ± 0.026	5.513GlySer: 5.513 ± 0.041	3.485GlyThr: 3.485 ± 0.029	4.539GlyVal: 4.539 ± 0.029	0.76GlyTrp: 0.76 ± 0.008	1.834GlyTyr: 1.834 ± 0.017	0.002GlyXaa: 0.002 ± 0.001
His	1.843HisAla: 1.843 ± 0.016	0.429HisCys: 0.429 ± 0.008	1.243HisAsp: 1.243 ± 0.011	1.509HisGlu: 1.509 ± 0.017	0.984HisPhe: 0.984 ± 0.011	1.565HisGly: 1.565 ± 0.016	0.73HisHis: 0.73 ± 0.011	0.929HisIle: 0.929 ± 0.011	1.017HisLys: 1.017 ± 0.011	2.219HisLeu: 2.219 ± 0.019	0.526HisMet: 0.526 ± 0.007	0.73HisAsn: 0.73 ± 0.01	1.216HisPro: 1.216 ± 0.012	1.018HisGln: 1.018 ± 0.012	1.58HisArg: 1.58 ± 0.015	1.717HisSer: 1.717 ± 0.015	1.146HisThr: 1.146 ± 0.011	1.758HisVal: 1.758 ± 0.014	0.309HisTrp: 0.309 ± 0.006	0.677HisTyr: 0.677 ± 0.01	0.001HisXaa: 0.001 ± 0.0
Ile	3.776IleAla: 3.776 ± 0.023	0.792IleCys: 0.792 ± 0.01	2.507IleAsp: 2.507 ± 0.02	2.652IleGlu: 2.652 ± 0.017	1.611IlePhe: 1.611 ± 0.015	2.471IleGly: 2.471 ± 0.017	0.958IleHis: 0.958 ± 0.01	1.716IleIle: 1.716 ± 0.018	2.046IleLys: 2.046 ± 0.015	3.556IleLeu: 3.556 ± 0.024	0.981IleMet: 0.981 ± 0.011	1.485IleAsn: 1.485 ± 0.014	2.173IlePro: 2.173 ± 0.017	1.736IleGln: 1.736 ± 0.016	2.48IleArg: 2.48 ± 0.016	3.249IleSer: 3.249 ± 0.023	2.382IleThr: 2.382 ± 0.02	3.208IleVal: 3.208 ± 0.02	0.494IleTrp: 0.494 ± 0.008	1.13IleTyr: 1.13 ± 0.012	0.001IleXaa: 0.001 ± 0.0
Lys	4.206LysAla: 4.206 ± 0.026	0.77LysCys: 0.77 ± 0.011	2.551LysAsp: 2.551 ± 0.016	3.491LysGlu: 3.491 ± 0.03	1.664LysPhe: 1.664 ± 0.013	2.404LysGly: 2.404 ± 0.019	1.277LysHis: 1.277 ± 0.012	2.1LysIle: 2.1 ± 0.017	4.065LysLys: 4.065 ± 0.037	5.11LysLeu: 5.11 ± 0.028	1.382LysMet: 1.382 ± 0.013	1.95LysAsn: 1.95 ± 0.015	2.314LysPro: 2.314 ± 0.018	2.406LysGln: 2.406 ± 0.019	3.922LysArg: 3.922 ± 0.022	3.534LysSer: 3.534 ± 0.022	3.273LysThr: 3.273 ± 0.02	3.06LysVal: 3.06 ± 0.018	0.714LysTrp: 0.714 ± 0.008	1.48LysTyr: 1.48 ± 0.016	0.002LysXaa: 0.002 ± 0.0
Leu	8.065LeuAla: 8.065 ± 0.036	1.564LeuCys: 1.564 ± 0.015	5.126LeuAsp: 5.126 ± 0.029	6.411LeuGlu: 6.411 ± 0.038	3.4LeuPhe: 3.4 ± 0.024	5.019LeuGly: 5.019 ± 0.025	2.537LeuHis: 2.537 ± 0.019	3.215LeuIle: 3.215 ± 0.024	4.697LeuLys: 4.697 ± 0.026	9.834LeuLeu: 9.834 ± 0.049	2.199LeuMet: 2.199 ± 0.017	3.178LeuAsn: 3.178 ± 0.018	4.59LeuPro: 4.59 ± 0.028	4.827LeuGln: 4.827 ± 0.029	6.399LeuArg: 6.399 ± 0.034	7.337LeuSer: 7.337 ± 0.032	5.002LeuThr: 5.002 ± 0.028	6.573LeuVal: 6.573 ± 0.034	1.061LeuTrp: 1.061 ± 0.009	2.313LeuTyr: 2.313 ± 0.018	0.002LeuXaa: 0.002 ± 0.0
Met	2.291MetAla: 2.291 ± 0.017	0.365MetCys: 0.365 ± 0.006	1.494MetAsp: 1.494 ± 0.013	1.804MetGlu: 1.804 ± 0.014	0.804MetPhe: 0.804 ± 0.01	1.37MetGly: 1.37 ± 0.013	0.554MetHis: 0.554 ± 0.007	0.971MetIle: 0.971 ± 0.012	1.414MetLys: 1.414 ± 0.013	2.487MetLeu: 2.487 ± 0.017	0.723MetMet: 0.723 ± 0.01	0.917MetAsn: 0.917 ± 0.009	1.107MetPro: 1.107 ± 0.011	1.134MetGln: 1.134 ± 0.012	1.499MetArg: 1.499 ± 0.014	1.832MetSer: 1.832 ± 0.014	1.5MetThr: 1.5 ± 0.012	1.591MetVal: 1.591 ± 0.014	0.298MetTrp: 0.298 ± 0.005	0.617MetTyr: 0.617 ± 0.011	0.001MetXaa: 0.001 ± 0.0
Asn	3.433AsnAla: 3.433 ± 0.022	0.601AsnCys: 0.601 ± 0.008	2.08AsnAsp: 2.08 ± 0.015	2.323AsnGlu: 2.323 ± 0.018	1.298AsnPhe: 1.298 ± 0.012	2.796AsnGly: 2.796 ± 0.022	0.759AsnHis: 0.759 ± 0.009	1.525AsnIle: 1.525 ± 0.013	1.671AsnLys: 1.671 ± 0.014	2.961AsnLeu: 2.961 ± 0.021	0.875AsnMet: 0.875 ± 0.009	1.411AsnAsn: 1.411 ± 0.015	1.81AsnPro: 1.81 ± 0.013	1.375AsnGln: 1.375 ± 0.014	1.911AsnArg: 1.911 ± 0.014	2.831AsnSer: 2.831 ± 0.018	2.037AsnThr: 2.037 ± 0.015	2.679AsnVal: 2.679 ± 0.016	0.437AsnTrp: 0.437 ± 0.008	1.005AsnTyr: 1.005 ± 0.012	0.001AsnXaa: 0.001 ± 0.0
Pro	4.144ProAla: 4.144 ± 0.032	0.567ProCys: 0.567 ± 0.009	2.407ProAsp: 2.407 ± 0.016	3.012ProGlu: 3.012 ± 0.02	1.647ProPhe: 1.647 ± 0.016	2.572ProGly: 2.572 ± 0.021	1.019ProHis: 1.019 ± 0.011	1.793ProIle: 1.793 ± 0.016	2.215ProLys: 2.215 ± 0.017	4.003ProLeu: 4.003 ± 0.021	1.105ProMet: 1.105 ± 0.012	1.581ProAsn: 1.581 ± 0.014	3.239ProPro: 3.239 ± 0.032	1.834ProGln: 1.834 ± 0.016	2.846ProArg: 2.846 ± 0.02	4.564ProSer: 4.564 ± 0.03	3.452ProThr: 3.452 ± 0.024	3.484ProVal: 3.484 ± 0.025	0.497ProTrp: 0.497 ± 0.008	1.019ProTyr: 1.019 ± 0.011	0.002ProXaa: 0.002 ± 0.0
Gln	3.334GlnAla: 3.334 ± 0.02	0.616GlnCys: 0.616 ± 0.009	2.008GlnAsp: 2.008 ± 0.016	2.915GlnGlu: 2.915 ± 0.025	1.439GlnPhe: 1.439 ± 0.012	1.903GlnGly: 1.903 ± 0.017	1.193GlnHis: 1.193 ± 0.013	1.728GlnIle: 1.728 ± 0.014	2.127GlnLys: 2.127 ± 0.017	4.601GlnLeu: 4.601 ± 0.027	1.077GlnMet: 1.077 ± 0.013	1.401GlnAsn: 1.401 ± 0.014	1.839GlnPro: 1.839 ± 0.017	3.133GlnGln: 3.133 ± 0.038	3.257GlnArg: 3.257 ± 0.024	2.892GlnSer: 2.892 ± 0.021	2.379GlnThr: 2.379 ± 0.018	2.734GlnVal: 2.734 ± 0.018	0.595GlnTrp: 0.595 ± 0.009	1.096GlnTyr: 1.096 ± 0.01	0.0GlnXaa: 0.0 ± 0.0
Arg	4.893ArgAla: 4.893 ± 0.027	1.022ArgCys: 1.022 ± 0.011	3.155ArgAsp: 3.155 ± 0.02	4.077ArgGlu: 4.077 ± 0.033	2.364ArgPhe: 2.364 ± 0.017	3.582ArgGly: 3.582 ± 0.024	1.652ArgHis: 1.652 ± 0.015	2.508ArgIle: 2.508 ± 0.019	3.566ArgLys: 3.566 ± 0.024	5.864ArgLeu: 5.864 ± 0.032	1.52ArgMet: 1.52 ± 0.015	2.139ArgAsn: 2.139 ± 0.016	2.521ArgPro: 2.521 ± 0.02	2.907ArgGln: 2.907 ± 0.021	5.479ArgArg: 5.479 ± 0.042	5.035ArgSer: 5.035 ± 0.027	3.084ArgThr: 3.084 ± 0.018	4.357ArgVal: 4.357 ± 0.021	0.849ArgTrp: 0.849 ± 0.011	1.627ArgTyr: 1.627 ± 0.013	0.002ArgXaa: 0.002 ± 0.0
Ser	7.058SerAla: 7.058 ± 0.034	1.266SerCys: 1.266 ± 0.013	4.746SerAsp: 4.746 ± 0.032	4.556SerGlu: 4.556 ± 0.028	3.066SerPhe: 3.066 ± 0.022	5.553SerGly: 5.553 ± 0.04	1.575SerHis: 1.575 ± 0.014	3.452SerIle: 3.452 ± 0.022	3.864SerLys: 3.864 ± 0.021	6.896SerLeu: 6.896 ± 0.031	1.953SerMet: 1.953 ± 0.018	3.031SerAsn: 3.031 ± 0.02	4.306SerPro: 4.306 ± 0.032	2.7SerGln: 2.7 ± 0.018	4.695SerArg: 4.695 ± 0.026	9.813SerSer: 9.813 ± 0.056	5.862SerThr: 5.862 ± 0.035	5.609SerVal: 5.609 ± 0.032	0.954SerTrp: 0.954 ± 0.009	1.931SerTyr: 1.931 ± 0.019	0.002SerXaa: 0.002 ± 0.0
Thr	5.438ThrAla: 5.438 ± 0.033	0.965ThrCys: 0.965 ± 0.012	2.98ThrAsp: 2.98 ± 0.018	3.495ThrGlu: 3.495 ± 0.027	2.126ThrPhe: 2.126 ± 0.02	3.795ThrGly: 3.795 ± 0.032	1.205ThrHis: 1.205 ± 0.012	2.642ThrIle: 2.642 ± 0.022	3.074ThrLys: 3.074 ± 0.02	5.465ThrLeu: 5.465 ± 0.027	1.396ThrMet: 1.396 ± 0.013	2.129ThrAsn: 2.129 ± 0.016	3.632ThrPro: 3.632 ± 0.029	2.292ThrGln: 2.292 ± 0.018	3.343ThrArg: 3.343 ± 0.02	5.557ThrSer: 5.557 ± 0.035	4.581ThrThr: 4.581 ± 0.038	3.939ThrVal: 3.939 ± 0.026	0.695ThrTrp: 0.695 ± 0.01	1.433ThrTyr: 1.433 ± 0.015	0.001ThrXaa: 0.001 ± 0.0
Val	6.701ValAla: 6.701 ± 0.029	1.251ValCys: 1.251 ± 0.012	4.345ValAsp: 4.345 ± 0.026	4.792ValGlu: 4.792 ± 0.027	2.807ValPhe: 2.807 ± 0.02	4.032ValGly: 4.032 ± 0.026	1.63ValHis: 1.63 ± 0.014	2.866ValIle: 2.866 ± 0.022	3.493ValLys: 3.493 ± 0.022	6.937ValLeu: 6.937 ± 0.035	1.696ValMet: 1.696 ± 0.014	2.554ValAsn: 2.554 ± 0.02	3.293ValPro: 3.293 ± 0.022	2.852ValGln: 2.852 ± 0.02	3.898ValArg: 3.898 ± 0.023	5.38ValSer: 5.38 ± 0.029	4.125ValThr: 4.125 ± 0.033	5.818ValVal: 5.818 ± 0.033	0.825ValTrp: 0.825 ± 0.009	1.909ValTyr: 1.909 ± 0.016	0.002ValXaa: 0.002 ± 0.0
Trp	0.737TrpAla: 0.737 ± 0.01	0.209TrpCys: 0.209 ± 0.005	0.663TrpAsp: 0.663 ± 0.009	0.693TrpGlu: 0.693 ± 0.009	0.478TrpPhe: 0.478 ± 0.008	0.684TrpGly: 0.684 ± 0.01	0.289TrpHis: 0.289 ± 0.006	0.591TrpIle: 0.591 ± 0.008	0.778TrpLys: 0.778 ± 0.009	1.269TrpLeu: 1.269 ± 0.016	0.408TrpMet: 0.408 ± 0.007	0.537TrpAsn: 0.537 ± 0.009	0.403TrpPro: 0.403 ± 0.008	0.481TrpGln: 0.481 ± 0.007	0.857TrpArg: 0.857 ± 0.01	0.917TrpSer: 0.917 ± 0.012	0.774TrpThr: 0.774 ± 0.009	0.758TrpVal: 0.758 ± 0.009	0.187TrpTrp: 0.187 ± 0.004	0.371TrpTyr: 0.371 ± 0.007	0.0TrpXaa: 0.0 ± 0.0
Tyr	2.155TyrAla: 2.155 ± 0.016	0.553TyrCys: 0.553 ± 0.009	1.571TyrAsp: 1.571 ± 0.014	1.636TyrGlu: 1.636 ± 0.014	1.15TyrPhe: 1.15 ± 0.012	1.77TyrGly: 1.77 ± 0.016	0.656TyrHis: 0.656 ± 0.009	1.041TyrIle: 1.041 ± 0.011	1.114TyrLys: 1.114 ± 0.012	2.482TyrLeu: 2.482 ± 0.017	0.66TyrMet: 0.66 ± 0.009	1.012TyrAsn: 1.012 ± 0.012	1.106TyrPro: 1.106 ± 0.013	1.046TyrGln: 1.046 ± 0.01	1.608TyrArg: 1.608 ± 0.013	1.91TyrSer: 1.91 ± 0.017	1.421TyrThr: 1.421 ± 0.013	1.914TyrVal: 1.914 ± 0.015	0.371TyrTrp: 0.371 ± 0.007	0.863TyrTyr: 0.863 ± 0.012	0.001TyrXaa: 0.001 ± 0.0
Xaa	0.003XaaAla: 0.003 ± 0.001	0.001XaaCys: 0.001 ± 0.0	0.002XaaAsp: 0.002 ± 0.0	0.001XaaGlu: 0.001 ± 0.0	0.001XaaPhe: 0.001 ± 0.0	0.003XaaGly: 0.003 ± 0.0	0.001XaaHis: 0.001 ± 0.0	0.001XaaIle: 0.001 ± 0.0	0.001XaaLys: 0.001 ± 0.0	0.001XaaLeu: 0.001 ± 0.0	0.001XaaMet: 0.001 ± 0.0	0.001XaaAsn: 0.001 ± 0.0	0.002XaaPro: 0.002 ± 0.0	0.001XaaGln: 0.001 ± 0.0	0.002XaaArg: 0.002 ± 0.0	0.001XaaSer: 0.001 ± 0.0	0.002XaaThr: 0.002 ± 0.0	0.002XaaVal: 0.002 ± 0.0	0.0XaaTrp: 0.0 ± 0.0	0.001XaaTyr: 0.001 ± 0.0	0.039XaaXaa: 0.039 ± 0.007

Statistics based on 23398 proteins (9185206 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

---