Amino acid dipepetide frequency for Oryza sativa subsp. indica (Rice)

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	15.911AlaAla: 15.911 ± 0.082	1.58AlaCys: 1.58 ± 0.01	4.478AlaAsp: 4.478 ± 0.021	5.054AlaGlu: 5.054 ± 0.024	3.007AlaPhe: 3.007 ± 0.017	7.1AlaGly: 7.1 ± 0.034	1.766AlaHis: 1.766 ± 0.011	3.719AlaIle: 3.719 ± 0.017	3.726AlaLys: 3.726 ± 0.021	7.875AlaLeu: 7.875 ± 0.033	2.404AlaMet: 2.404 ± 0.014	2.595AlaAsn: 2.595 ± 0.018	4.798AlaPro: 4.798 ± 0.025	2.434AlaGln: 2.434 ± 0.015	5.658AlaArg: 5.658 ± 0.025	7.467AlaSer: 7.467 ± 0.032	5.0AlaThr: 5.0 ± 0.023	7.131AlaVal: 7.131 ± 0.028	1.061AlaTrp: 1.061 ± 0.009	1.946AlaTyr: 1.946 ± 0.012	0.0AlaXaa: 0.0 ± 0.0
Cys	1.374CysAla: 1.374 ± 0.011	0.599CysCys: 0.599 ± 0.008	0.917CysAsp: 0.917 ± 0.008	0.807CysGlu: 0.807 ± 0.008	0.802CysPhe: 0.802 ± 0.008	1.543CysGly: 1.543 ± 0.012	0.519CysHis: 0.519 ± 0.007	0.876CysIle: 0.876 ± 0.009	0.942CysLys: 0.942 ± 0.01	1.775CysLeu: 1.775 ± 0.011	0.448CysMet: 0.448 ± 0.005	0.734CysAsn: 0.734 ± 0.007	1.028CysPro: 1.028 ± 0.011	0.563CysGln: 0.563 ± 0.007	1.34CysArg: 1.34 ± 0.01	1.863CysSer: 1.863 ± 0.013	0.915CysThr: 0.915 ± 0.008	1.136CysVal: 1.136 ± 0.009	0.257CysTrp: 0.257 ± 0.004	0.522CysTyr: 0.522 ± 0.007	0.0CysXaa: 0.0 ± 0.0
Asp	4.992AspAla: 4.992 ± 0.023	0.943AspCys: 0.943 ± 0.008	4.707AspAsp: 4.707 ± 0.031	4.054AspGlu: 4.054 ± 0.023	1.959AspPhe: 1.959 ± 0.012	4.993AspGly: 4.993 ± 0.021	1.317AspHis: 1.317 ± 0.011	2.651AspIle: 2.651 ± 0.016	2.401AspLys: 2.401 ± 0.014	4.907AspLeu: 4.907 ± 0.02	1.449AspMet: 1.449 ± 0.012	1.841AspAsn: 1.841 ± 0.012	2.668AspPro: 2.668 ± 0.015	1.618AspGln: 1.618 ± 0.012	2.713AspArg: 2.713 ± 0.016	3.587AspSer: 3.587 ± 0.02	2.242AspThr: 2.242 ± 0.014	3.904AspVal: 3.904 ± 0.018	0.698AspTrp: 0.698 ± 0.007	1.415AspTyr: 1.415 ± 0.01	0.0AspXaa: 0.0 ± 0.0
Glu	5.501GluAla: 5.501 ± 0.022	0.87GluCys: 0.87 ± 0.008	3.694GluAsp: 3.694 ± 0.02	6.029GluGlu: 6.029 ± 0.033	1.988GluPhe: 1.988 ± 0.013	3.746GluGly: 3.746 ± 0.019	1.415GluHis: 1.415 ± 0.011	2.955GluIle: 2.955 ± 0.016	3.622GluLys: 3.622 ± 0.02	5.961GluLeu: 5.961 ± 0.024	1.698GluMet: 1.698 ± 0.011	2.175GluAsn: 2.175 ± 0.015	2.258GluPro: 2.258 ± 0.016	2.209GluGln: 2.209 ± 0.014	3.621GluArg: 3.621 ± 0.017	3.648GluSer: 3.648 ± 0.019	2.514GluThr: 2.514 ± 0.015	4.089GluVal: 4.089 ± 0.02	0.764GluTrp: 0.764 ± 0.008	1.48GluTyr: 1.48 ± 0.012	0.0GluXaa: 0.0 ± 0.0
Phe	2.844PheAla: 2.844 ± 0.015	0.756PheCys: 0.756 ± 0.007	2.153PheAsp: 2.153 ± 0.013	1.796PheGlu: 1.796 ± 0.011	1.638PhePhe: 1.638 ± 0.011	2.795PheGly: 2.795 ± 0.017	0.998PheHis: 0.998 ± 0.008	1.553PheIle: 1.553 ± 0.012	1.459PheLys: 1.459 ± 0.011	3.758PheLeu: 3.758 ± 0.021	0.863PheMet: 0.863 ± 0.009	1.287PheAsn: 1.287 ± 0.01	1.838PhePro: 1.838 ± 0.013	1.211PheGln: 1.211 ± 0.01	2.053PheArg: 2.053 ± 0.012	3.162PheSer: 3.162 ± 0.018	1.718PheThr: 1.718 ± 0.011	2.596PheVal: 2.596 ± 0.016	0.503PheTrp: 0.503 ± 0.006	1.037PheTyr: 1.037 ± 0.009	0.0PheXaa: 0.0 ± 0.0
Gly	6.412GlyAla: 6.412 ± 0.03	1.534GlyCys: 1.534 ± 0.013	4.451GlyAsp: 4.451 ± 0.021	4.36GlyGlu: 4.36 ± 0.021	2.84GlyPhe: 2.84 ± 0.016	9.873GlyGly: 9.873 ± 0.065	1.832GlyHis: 1.832 ± 0.012	3.09GlyIle: 3.09 ± 0.015	3.607GlyLys: 3.607 ± 0.016	5.859GlyLeu: 5.859 ± 0.024	1.712GlyMet: 1.712 ± 0.012	2.756GlyAsn: 2.756 ± 0.017	2.644GlyPro: 2.644 ± 0.016	2.135GlyGln: 2.135 ± 0.013	5.0GlyArg: 5.0 ± 0.026	6.048GlySer: 6.048 ± 0.028	3.346GlyThr: 3.346 ± 0.015	4.946GlyVal: 4.946 ± 0.023	1.065GlyTrp: 1.065 ± 0.009	2.056GlyTyr: 2.056 ± 0.016	0.0GlyXaa: 0.0 ± 0.0
His	1.958HisAla: 1.958 ± 0.012	0.562HisCys: 0.562 ± 0.007	1.326HisAsp: 1.326 ± 0.011	1.226HisGlu: 1.226 ± 0.009	0.891HisPhe: 0.891 ± 0.009	2.212HisGly: 2.212 ± 0.014	1.168HisHis: 1.168 ± 0.013	1.052HisIle: 1.052 ± 0.01	0.971HisLys: 0.971 ± 0.01	2.569HisLeu: 2.569 ± 0.015	0.554HisMet: 0.554 ± 0.007	0.811HisAsn: 0.811 ± 0.008	1.508HisPro: 1.508 ± 0.011	0.936HisGln: 0.936 ± 0.008	1.795HisArg: 1.795 ± 0.011	1.63HisSer: 1.63 ± 0.012	0.952HisThr: 0.952 ± 0.009	1.639HisVal: 1.639 ± 0.011	0.318HisTrp: 0.318 ± 0.004	0.644HisTyr: 0.644 ± 0.007	0.0HisXaa: 0.0 ± 0.0
Ile	3.542IleAla: 3.542 ± 0.018	0.93IleCys: 0.93 ± 0.009	2.541IleAsp: 2.541 ± 0.013	2.435IleGlu: 2.435 ± 0.013	1.641IlePhe: 1.641 ± 0.012	3.042IleGly: 3.042 ± 0.016	1.111IleHis: 1.111 ± 0.01	2.165IleIle: 2.165 ± 0.014	2.194IleLys: 2.194 ± 0.014	4.169IleLeu: 4.169 ± 0.019	0.997IleMet: 0.997 ± 0.009	1.638IleAsn: 1.638 ± 0.011	2.466IlePro: 2.466 ± 0.019	1.518IleGln: 1.518 ± 0.01	2.41IleArg: 2.41 ± 0.015	3.735IleSer: 3.735 ± 0.022	2.264IleThr: 2.264 ± 0.015	3.015IleVal: 3.015 ± 0.017	0.6IleTrp: 0.6 ± 0.008	1.196IleTyr: 1.196 ± 0.011	0.0IleXaa: 0.0 ± 0.0
Lys	3.792LysAla: 3.792 ± 0.018	0.815LysCys: 0.815 ± 0.009	2.621LysAsp: 2.621 ± 0.014	3.563LysGlu: 3.563 ± 0.02	1.554LysPhe: 1.554 ± 0.011	2.999LysGly: 2.999 ± 0.016	1.138LysHis: 1.138 ± 0.01	2.445LysIle: 2.445 ± 0.016	3.623LysLys: 3.623 ± 0.024	4.851LysLeu: 4.851 ± 0.022	1.263LysMet: 1.263 ± 0.01	1.947LysAsn: 1.947 ± 0.012	2.257LysPro: 2.257 ± 0.017	1.82LysGln: 1.82 ± 0.012	3.112LysArg: 3.112 ± 0.019	3.287LysSer: 3.287 ± 0.019	2.162LysThr: 2.162 ± 0.015	3.154LysVal: 3.154 ± 0.014	0.591LysTrp: 0.591 ± 0.007	1.281LysTyr: 1.281 ± 0.01	0.0LysXaa: 0.0 ± 0.0
Leu	8.365LeuAla: 8.365 ± 0.031	1.785LeuCys: 1.785 ± 0.012	5.128LeuAsp: 5.128 ± 0.024	5.592LeuGlu: 5.592 ± 0.023	3.321LeuPhe: 3.321 ± 0.017	5.892LeuGly: 5.892 ± 0.028	2.711LeuHis: 2.711 ± 0.015	3.627LeuIle: 3.627 ± 0.018	4.633LeuLys: 4.633 ± 0.022	10.444LeuLeu: 10.444 ± 0.039	2.024LeuMet: 2.024 ± 0.012	2.973LeuAsn: 2.973 ± 0.017	5.896LeuPro: 5.896 ± 0.028	3.966LeuGln: 3.966 ± 0.023	6.458LeuArg: 6.458 ± 0.027	7.635LeuSer: 7.635 ± 0.032	4.237LeuThr: 4.237 ± 0.02	6.559LeuVal: 6.559 ± 0.024	1.134LeuTrp: 1.134 ± 0.01	2.247LeuTyr: 2.247 ± 0.012	0.0LeuXaa: 0.0 ± 0.0
Met	2.993MetAla: 2.993 ± 0.017	0.335MetCys: 0.335 ± 0.005	1.478MetAsp: 1.478 ± 0.01	1.914MetGlu: 1.914 ± 0.013	0.76MetPhe: 0.76 ± 0.008	1.562MetGly: 1.562 ± 0.012	0.555MetHis: 0.555 ± 0.007	0.975MetIle: 0.975 ± 0.008	1.254MetLys: 1.254 ± 0.01	2.221MetLeu: 2.221 ± 0.014	0.681MetMet: 0.681 ± 0.008	0.824MetAsn: 0.824 ± 0.008	1.286MetPro: 1.286 ± 0.012	0.908MetGln: 0.908 ± 0.009	1.389MetArg: 1.389 ± 0.011	1.758MetSer: 1.758 ± 0.012	1.041MetThr: 1.041 ± 0.008	1.766MetVal: 1.766 ± 0.011	0.289MetTrp: 0.289 ± 0.005	0.579MetTyr: 0.579 ± 0.007	0.0MetXaa: 0.0 ± 0.0
Asn	2.622AsnAla: 2.622 ± 0.016	0.697AsnCys: 0.697 ± 0.008	1.722AsnAsp: 1.722 ± 0.01	1.798AsnGlu: 1.798 ± 0.014	1.389AsnPhe: 1.389 ± 0.01	2.847AsnGly: 2.847 ± 0.018	0.871AsnHis: 0.871 ± 0.009	1.904AsnIle: 1.904 ± 0.013	1.796AsnLys: 1.796 ± 0.013	3.712AsnLeu: 3.712 ± 0.028	0.973AsnMet: 0.973 ± 0.008	1.707AsnAsn: 1.707 ± 0.017	1.838AsnPro: 1.838 ± 0.013	1.231AsnGln: 1.231 ± 0.011	1.742AsnArg: 1.742 ± 0.011	2.771AsnSer: 2.771 ± 0.016	1.649AsnThr: 1.649 ± 0.011	2.232AsnVal: 2.232 ± 0.014	0.443AsnTrp: 0.443 ± 0.006	0.99AsnTyr: 0.99 ± 0.009	0.0AsnXaa: 0.0 ± 0.0
Pro	5.446ProAla: 5.446 ± 0.027	0.938ProCys: 0.938 ± 0.009	2.764ProAsp: 2.764 ± 0.017	3.224ProGlu: 3.224 ± 0.02	1.816ProPhe: 1.816 ± 0.012	3.283ProGly: 3.283 ± 0.017	1.227ProHis: 1.227 ± 0.01	1.854ProIle: 1.854 ± 0.012	2.187ProLys: 2.187 ± 0.017	4.526ProLeu: 4.526 ± 0.022	1.106ProMet: 1.106 ± 0.009	1.797ProAsn: 1.797 ± 0.014	5.982ProPro: 5.982 ± 0.044	1.741ProGln: 1.741 ± 0.013	3.386ProArg: 3.386 ± 0.02	5.306ProSer: 5.306 ± 0.026	2.791ProThr: 2.791 ± 0.016	3.45ProVal: 3.45 ± 0.015	0.714ProTrp: 0.714 ± 0.008	1.248ProTyr: 1.248 ± 0.011	0.0ProXaa: 0.0 ± 0.0
Gln	2.625GlnAla: 2.625 ± 0.015	0.594GlnCys: 0.594 ± 0.007	1.564GlnAsp: 1.564 ± 0.011	2.249GlnGlu: 2.249 ± 0.015	1.122GlnPhe: 1.122 ± 0.009	2.129GlnGly: 2.129 ± 0.015	0.969GlnHis: 0.969 ± 0.01	1.587GlnIle: 1.587 ± 0.012	1.759GlnLys: 1.759 ± 0.013	3.49GlnLeu: 3.49 ± 0.019	0.928GlnMet: 0.928 ± 0.009	1.264GlnAsn: 1.264 ± 0.011	1.912GlnPro: 1.912 ± 0.014	2.23GlnGln: 2.23 ± 0.028	2.227GlnArg: 2.227 ± 0.014	2.306GlnSer: 2.306 ± 0.014	1.385GlnThr: 1.385 ± 0.01	2.135GlnVal: 2.135 ± 0.014	0.471GlnTrp: 0.471 ± 0.007	0.853GlnTyr: 0.853 ± 0.008	0.0GlnXaa: 0.0 ± 0.0
Arg	5.182ArgAla: 5.182 ± 0.026	1.371ArgCys: 1.371 ± 0.011	3.04ArgAsp: 3.04 ± 0.017	3.487ArgGlu: 3.487 ± 0.017	2.241ArgPhe: 2.241 ± 0.013	4.512ArgGly: 4.512 ± 0.025	1.752ArgHis: 1.752 ± 0.013	2.609ArgIle: 2.609 ± 0.013	3.262ArgLys: 3.262 ± 0.02	6.169ArgLeu: 6.169 ± 0.026	1.544ArgMet: 1.544 ± 0.01	2.078ArgAsn: 2.078 ± 0.012	3.282ArgPro: 3.282 ± 0.018	2.085ArgGln: 2.085 ± 0.014	7.133ArgArg: 7.133 ± 0.035	4.879ArgSer: 4.879 ± 0.019	2.616ArgThr: 2.616 ± 0.015	3.91ArgVal: 3.91 ± 0.019	1.137ArgTrp: 1.137 ± 0.008	1.603ArgTyr: 1.603 ± 0.011	0.0ArgXaa: 0.0 ± 0.0
Ser	6.477SerAla: 6.477 ± 0.026	1.716SerCys: 1.716 ± 0.012	3.992SerAsp: 3.992 ± 0.019	3.866SerGlu: 3.866 ± 0.021	3.191SerPhe: 3.191 ± 0.015	6.049SerGly: 6.049 ± 0.026	1.772SerHis: 1.772 ± 0.012	3.531SerIle: 3.531 ± 0.02	3.644SerLys: 3.644 ± 0.018	7.629SerLeu: 7.629 ± 0.031	1.993SerMet: 1.993 ± 0.014	3.017SerAsn: 3.017 ± 0.018	4.932SerPro: 4.932 ± 0.027	2.374SerGln: 2.374 ± 0.013	4.711SerArg: 4.711 ± 0.022	10.198SerSer: 10.198 ± 0.047	4.389SerThr: 4.389 ± 0.019	4.74SerVal: 4.74 ± 0.022	1.16SerTrp: 1.16 ± 0.01	2.036SerTyr: 2.036 ± 0.013	0.0SerXaa: 0.0 ± 0.0
Thr	4.61ThrAla: 4.61 ± 0.019	0.91ThrCys: 0.91 ± 0.008	2.293ThrAsp: 2.293 ± 0.015	2.497ThrGlu: 2.497 ± 0.015	1.732ThrPhe: 1.732 ± 0.01	3.549ThrGly: 3.549 ± 0.016	0.93ThrHis: 0.93 ± 0.007	2.278ThrIle: 2.278 ± 0.015	2.189ThrLys: 2.189 ± 0.013	4.182ThrLeu: 4.182 ± 0.017	1.25ThrMet: 1.25 ± 0.01	1.729ThrAsn: 1.729 ± 0.012	2.827ThrPro: 2.827 ± 0.018	1.278ThrGln: 1.278 ± 0.009	2.567ThrArg: 2.567 ± 0.013	4.199ThrSer: 4.199 ± 0.021	3.295ThrThr: 3.295 ± 0.021	3.523ThrVal: 3.523 ± 0.018	0.621ThrTrp: 0.621 ± 0.007	1.241ThrTyr: 1.241 ± 0.01	0.0ThrXaa: 0.0 ± 0.0
Val	7.165ValAla: 7.165 ± 0.029	1.164ValCys: 1.164 ± 0.01	4.027ValAsp: 4.027 ± 0.017	4.221ValGlu: 4.221 ± 0.019	2.552ValPhe: 2.552 ± 0.015	4.653ValGly: 4.653 ± 0.021	1.66ValHis: 1.66 ± 0.011	2.897ValIle: 2.897 ± 0.016	3.094ValLys: 3.094 ± 0.015	6.643ValLeu: 6.643 ± 0.024	1.61ValMet: 1.61 ± 0.011	2.077ValAsn: 2.077 ± 0.013	3.591ValPro: 3.591 ± 0.018	2.254ValGln: 2.254 ± 0.014	3.876ValArg: 3.876 ± 0.018	4.986ValSer: 4.986 ± 0.021	3.317ValThr: 3.317 ± 0.018	5.971ValVal: 5.971 ± 0.025	0.837ValTrp: 0.837 ± 0.008	1.781ValTyr: 1.781 ± 0.012	0.0ValXaa: 0.0 ± 0.0
Trp	0.988TrpAla: 0.988 ± 0.009	0.274TrpCys: 0.274 ± 0.004	0.681TrpAsp: 0.681 ± 0.008	0.754TrpGlu: 0.754 ± 0.007	0.484TrpPhe: 0.484 ± 0.006	0.781TrpGly: 0.781 ± 0.009	0.321TrpHis: 0.321 ± 0.005	0.614TrpIle: 0.614 ± 0.008	0.739TrpLys: 0.739 ± 0.008	1.314TrpLeu: 1.314 ± 0.01	0.376TrpMet: 0.376 ± 0.005	0.572TrpAsn: 0.572 ± 0.008	0.613TrpPro: 0.613 ± 0.006	0.469TrpGln: 0.469 ± 0.005	1.214TrpArg: 1.214 ± 0.01	1.029TrpSer: 1.029 ± 0.009	0.657TrpThr: 0.657 ± 0.008	0.831TrpVal: 0.831 ± 0.007	0.293TrpTrp: 0.293 ± 0.006	0.327TrpTyr: 0.327 ± 0.005	0.0TrpXaa: 0.0 ± 0.0
Tyr	1.907TyrAla: 1.907 ± 0.013	0.587TyrCys: 0.587 ± 0.006	1.485TyrAsp: 1.485 ± 0.012	1.311TyrGlu: 1.311 ± 0.01	1.09TyrPhe: 1.09 ± 0.01	2.008TyrGly: 2.008 ± 0.015	0.69TyrHis: 0.69 ± 0.008	1.23TyrIle: 1.23 ± 0.01	1.176TyrLys: 1.176 ± 0.009	2.572TyrLeu: 2.572 ± 0.016	0.696TyrMet: 0.696 ± 0.007	1.109TyrAsn: 1.109 ± 0.011	1.162TyrPro: 1.162 ± 0.01	0.82TyrGln: 0.82 ± 0.008	1.487TyrArg: 1.487 ± 0.01	1.921TyrSer: 1.921 ± 0.014	1.209TyrThr: 1.209 ± 0.01	1.648TyrVal: 1.648 ± 0.011	0.377TyrTrp: 0.377 ± 0.006	0.927TyrTyr: 0.927 ± 0.009	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 37391 proteins (13937853 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

---