Amino acid dipepetide frequency for Oryza nivara (Indian wild rice) (Oryza sativa f. spontanea)

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	14.981AlaAla: 14.981 ± 0.075	1.586AlaCys: 1.586 ± 0.009	4.215AlaAsp: 4.215 ± 0.018	4.818AlaGlu: 4.818 ± 0.021	2.878AlaPhe: 2.878 ± 0.014	6.729AlaGly: 6.729 ± 0.028	1.746AlaHis: 1.746 ± 0.011	3.717AlaIle: 3.717 ± 0.017	3.614AlaLys: 3.614 ± 0.018	7.728AlaLeu: 7.728 ± 0.025	2.33AlaMet: 2.33 ± 0.012	2.555AlaAsn: 2.555 ± 0.014	4.69AlaPro: 4.69 ± 0.024	2.365AlaGln: 2.365 ± 0.012	5.539AlaArg: 5.539 ± 0.021	7.449AlaSer: 7.449 ± 0.024	4.902AlaThr: 4.902 ± 0.02	6.77AlaVal: 6.77 ± 0.028	1.013AlaTrp: 1.013 ± 0.008	1.86AlaTyr: 1.86 ± 0.011	0.0AlaXaa: 0.0 ± 0.0
Cys	1.369CysAla: 1.369 ± 0.01	0.629CysCys: 0.629 ± 0.008	0.914CysAsp: 0.914 ± 0.008	0.833CysGlu: 0.833 ± 0.007	0.819CysPhe: 0.819 ± 0.008	1.556CysGly: 1.556 ± 0.011	0.551CysHis: 0.551 ± 0.006	0.928CysIle: 0.928 ± 0.007	0.949CysLys: 0.949 ± 0.009	1.859CysLeu: 1.859 ± 0.011	0.459CysMet: 0.459 ± 0.004	0.755CysAsn: 0.755 ± 0.007	1.041CysPro: 1.041 ± 0.01	0.591CysGln: 0.591 ± 0.006	1.349CysArg: 1.349 ± 0.009	1.948CysSer: 1.948 ± 0.012	0.953CysThr: 0.953 ± 0.008	1.138CysVal: 1.138 ± 0.009	0.272CysTrp: 0.272 ± 0.004	0.527CysTyr: 0.527 ± 0.006	0.0CysXaa: 0.0 ± 0.0
Asp	4.722AspAla: 4.722 ± 0.02	0.922AspCys: 0.922 ± 0.008	4.42AspAsp: 4.42 ± 0.022	3.905AspGlu: 3.905 ± 0.017	1.944AspPhe: 1.944 ± 0.012	4.76AspGly: 4.76 ± 0.019	1.303AspHis: 1.303 ± 0.009	2.713AspIle: 2.713 ± 0.013	2.386AspLys: 2.386 ± 0.011	4.877AspLeu: 4.877 ± 0.022	1.41AspMet: 1.41 ± 0.009	1.841AspAsn: 1.841 ± 0.011	2.611AspPro: 2.611 ± 0.012	1.582AspGln: 1.582 ± 0.011	2.667AspArg: 2.667 ± 0.014	3.643AspSer: 3.643 ± 0.014	2.204AspThr: 2.204 ± 0.012	3.756AspVal: 3.756 ± 0.014	0.685AspTrp: 0.685 ± 0.007	1.366AspTyr: 1.366 ± 0.009	0.0AspXaa: 0.0 ± 0.0
Glu	5.285GluAla: 5.285 ± 0.02	0.866GluCys: 0.866 ± 0.008	3.599GluAsp: 3.599 ± 0.016	5.847GluGlu: 5.847 ± 0.028	1.973GluPhe: 1.973 ± 0.011	3.731GluGly: 3.731 ± 0.017	1.406GluHis: 1.406 ± 0.01	2.992GluIle: 2.992 ± 0.016	3.651GluLys: 3.651 ± 0.02	5.876GluLeu: 5.876 ± 0.023	1.679GluMet: 1.679 ± 0.01	2.225GluAsn: 2.225 ± 0.012	2.226GluPro: 2.226 ± 0.014	2.173GluGln: 2.173 ± 0.012	3.63GluArg: 3.63 ± 0.02	3.692GluSer: 3.692 ± 0.016	2.527GluThr: 2.527 ± 0.012	4.028GluVal: 4.028 ± 0.016	0.753GluTrp: 0.753 ± 0.007	1.463GluTyr: 1.463 ± 0.009	0.0GluXaa: 0.0 ± 0.0
Phe	2.754PheAla: 2.754 ± 0.014	0.794PheCys: 0.794 ± 0.007	2.093PheAsp: 2.093 ± 0.012	1.776PheGlu: 1.776 ± 0.011	1.673PhePhe: 1.673 ± 0.011	2.798PheGly: 2.798 ± 0.016	0.994PheHis: 0.994 ± 0.007	1.605PheIle: 1.605 ± 0.011	1.466PheLys: 1.466 ± 0.009	3.845PheLeu: 3.845 ± 0.018	0.861PheMet: 0.861 ± 0.007	1.31PheAsn: 1.31 ± 0.008	1.902PhePro: 1.902 ± 0.012	1.228PheGln: 1.228 ± 0.008	2.008PheArg: 2.008 ± 0.011	3.292PheSer: 3.292 ± 0.014	1.711PheThr: 1.711 ± 0.01	2.567PheVal: 2.567 ± 0.013	0.491PheTrp: 0.491 ± 0.006	1.028PheTyr: 1.028 ± 0.008	0.0PheXaa: 0.0 ± 0.0
Gly	6.131GlyAla: 6.131 ± 0.027	1.531GlyCys: 1.531 ± 0.012	4.27GlyAsp: 4.27 ± 0.017	4.278GlyGlu: 4.278 ± 0.018	2.774GlyPhe: 2.774 ± 0.015	9.365GlyGly: 9.365 ± 0.056	1.789GlyHis: 1.789 ± 0.01	3.149GlyIle: 3.149 ± 0.015	3.522GlyLys: 3.522 ± 0.016	5.827GlyLeu: 5.827 ± 0.02	1.649GlyMet: 1.649 ± 0.01	2.748GlyAsn: 2.748 ± 0.016	2.637GlyPro: 2.637 ± 0.014	2.134GlyGln: 2.134 ± 0.011	4.999GlyArg: 4.999 ± 0.024	6.102GlySer: 6.102 ± 0.021	3.346GlyThr: 3.346 ± 0.014	4.772GlyVal: 4.772 ± 0.022	1.043GlyTrp: 1.043 ± 0.009	2.01GlyTyr: 2.01 ± 0.012	0.001GlyXaa: 0.001 ± 0.0
His	1.952HisAla: 1.952 ± 0.011	0.576HisCys: 0.576 ± 0.006	1.297HisAsp: 1.297 ± 0.01	1.231HisGlu: 1.231 ± 0.009	0.924HisPhe: 0.924 ± 0.007	2.191HisGly: 2.191 ± 0.013	1.169HisHis: 1.169 ± 0.011	1.087HisIle: 1.087 ± 0.008	0.995HisLys: 0.995 ± 0.008	2.665HisLeu: 2.665 ± 0.015	0.572HisMet: 0.572 ± 0.006	0.833HisAsn: 0.833 ± 0.007	1.569HisPro: 1.569 ± 0.01	0.966HisGln: 0.966 ± 0.008	1.835HisArg: 1.835 ± 0.011	1.724HisSer: 1.724 ± 0.011	0.982HisThr: 0.982 ± 0.007	1.637HisVal: 1.637 ± 0.009	0.302HisTrp: 0.302 ± 0.004	0.655HisTyr: 0.655 ± 0.006	0.0HisXaa: 0.0 ± 0.0
Ile	3.538IleAla: 3.538 ± 0.015	0.988IleCys: 0.988 ± 0.009	2.534IleAsp: 2.534 ± 0.012	2.494IleGlu: 2.494 ± 0.013	1.743IlePhe: 1.743 ± 0.012	3.093IleGly: 3.093 ± 0.017	1.174IleHis: 1.174 ± 0.008	2.277IleIle: 2.277 ± 0.013	2.231IleLys: 2.231 ± 0.012	4.392IleLeu: 4.392 ± 0.018	0.995IleMet: 0.995 ± 0.008	1.705IleAsn: 1.705 ± 0.01	2.547IlePro: 2.547 ± 0.018	1.568IleGln: 1.568 ± 0.01	2.429IleArg: 2.429 ± 0.013	3.998IleSer: 3.998 ± 0.019	2.302IleThr: 2.302 ± 0.012	3.052IleVal: 3.052 ± 0.014	0.622IleTrp: 0.622 ± 0.007	1.257IleTyr: 1.257 ± 0.01	0.0IleXaa: 0.0 ± 0.0
Lys	3.619LysAla: 3.619 ± 0.017	0.827LysCys: 0.827 ± 0.007	2.611LysAsp: 2.611 ± 0.016	3.572LysGlu: 3.572 ± 0.018	1.582LysPhe: 1.582 ± 0.01	2.971LysGly: 2.971 ± 0.015	1.147LysHis: 1.147 ± 0.007	2.544LysIle: 2.544 ± 0.014	3.532LysLys: 3.532 ± 0.02	4.906LysLeu: 4.906 ± 0.024	1.24LysMet: 1.24 ± 0.009	1.985LysAsn: 1.985 ± 0.011	2.277LysPro: 2.277 ± 0.013	1.828LysGln: 1.828 ± 0.01	3.091LysArg: 3.091 ± 0.014	3.418LysSer: 3.418 ± 0.018	2.19LysThr: 2.19 ± 0.011	3.106LysVal: 3.106 ± 0.014	0.59LysTrp: 0.59 ± 0.006	1.293LysTyr: 1.293 ± 0.009	0.0LysXaa: 0.0 ± 0.0
Leu	8.165LeuAla: 8.165 ± 0.023	1.866LeuCys: 1.866 ± 0.011	5.094LeuAsp: 5.094 ± 0.021	5.64LeuGlu: 5.64 ± 0.024	3.397LeuPhe: 3.397 ± 0.014	5.859LeuGly: 5.859 ± 0.021	2.822LeuHis: 2.822 ± 0.013	3.757LeuIle: 3.757 ± 0.018	4.706LeuLys: 4.706 ± 0.021	10.73LeuLeu: 10.73 ± 0.037	2.012LeuMet: 2.012 ± 0.011	3.07LeuAsn: 3.07 ± 0.016	6.005LeuPro: 6.005 ± 0.022	4.076LeuGln: 4.076 ± 0.019	6.474LeuArg: 6.474 ± 0.029	7.987LeuSer: 7.987 ± 0.036	4.302LeuThr: 4.302 ± 0.02	6.503LeuVal: 6.503 ± 0.023	1.14LeuTrp: 1.14 ± 0.009	2.265LeuTyr: 2.265 ± 0.011	0.0LeuXaa: 0.0 ± 0.0
Met	2.79MetAla: 2.79 ± 0.013	0.345MetCys: 0.345 ± 0.004	1.46MetAsp: 1.46 ± 0.009	1.874MetGlu: 1.874 ± 0.012	0.761MetPhe: 0.761 ± 0.006	1.523MetGly: 1.523 ± 0.009	0.58MetHis: 0.58 ± 0.005	1.0MetIle: 1.0 ± 0.007	1.278MetLys: 1.278 ± 0.009	2.223MetLeu: 2.223 ± 0.012	0.668MetMet: 0.668 ± 0.006	0.847MetAsn: 0.847 ± 0.007	1.296MetPro: 1.296 ± 0.009	0.894MetGln: 0.894 ± 0.007	1.383MetArg: 1.383 ± 0.009	1.772MetSer: 1.772 ± 0.011	1.062MetThr: 1.062 ± 0.008	1.704MetVal: 1.704 ± 0.01	0.3MetTrp: 0.3 ± 0.004	0.561MetTyr: 0.561 ± 0.006	0.0MetXaa: 0.0 ± 0.0
Asn	2.578AsnAla: 2.578 ± 0.014	0.731AsnCys: 0.731 ± 0.007	1.726AsnAsp: 1.726 ± 0.01	1.834AsnGlu: 1.834 ± 0.012	1.428AsnPhe: 1.428 ± 0.01	2.815AsnGly: 2.815 ± 0.014	0.906AsnHis: 0.906 ± 0.007	2.029AsnIle: 2.029 ± 0.012	1.82AsnLys: 1.82 ± 0.012	3.868AsnLeu: 3.868 ± 0.028	0.977AsnMet: 0.977 ± 0.007	1.741AsnAsn: 1.741 ± 0.013	1.869AsnPro: 1.869 ± 0.012	1.264AsnGln: 1.264 ± 0.011	1.752AsnArg: 1.752 ± 0.008	2.906AsnSer: 2.906 ± 0.016	1.695AsnThr: 1.695 ± 0.011	2.229AsnVal: 2.229 ± 0.012	0.443AsnTrp: 0.443 ± 0.005	0.999AsnTyr: 0.999 ± 0.008	0.0AsnXaa: 0.0 ± 0.0
Pro	5.278ProAla: 5.278 ± 0.024	0.994ProCys: 0.994 ± 0.009	2.677ProAsp: 2.677 ± 0.013	3.159ProGlu: 3.159 ± 0.014	1.863ProPhe: 1.863 ± 0.012	3.206ProGly: 3.206 ± 0.017	1.294ProHis: 1.294 ± 0.01	1.926ProIle: 1.926 ± 0.01	2.211ProLys: 2.211 ± 0.013	4.693ProLeu: 4.693 ± 0.019	1.088ProMet: 1.088 ± 0.008	1.855ProAsn: 1.855 ± 0.011	6.187ProPro: 6.187 ± 0.039	1.746ProGln: 1.746 ± 0.013	3.502ProArg: 3.502 ± 0.017	5.574ProSer: 5.574 ± 0.021	2.855ProThr: 2.855 ± 0.013	3.392ProVal: 3.392 ± 0.017	0.698ProTrp: 0.698 ± 0.007	1.251ProTyr: 1.251 ± 0.011	0.0ProXaa: 0.0 ± 0.0
Gln	2.527GlnAla: 2.527 ± 0.013	0.606GlnCys: 0.606 ± 0.006	1.574GlnAsp: 1.574 ± 0.011	2.21GlnGlu: 2.21 ± 0.013	1.155GlnPhe: 1.155 ± 0.009	2.124GlnGly: 2.124 ± 0.014	0.989GlnHis: 0.989 ± 0.008	1.63GlnIle: 1.63 ± 0.01	1.779GlnLys: 1.779 ± 0.011	3.533GlnLeu: 3.533 ± 0.016	0.91GlnMet: 0.91 ± 0.007	1.332GlnAsn: 1.332 ± 0.009	1.903GlnPro: 1.903 ± 0.013	2.188GlnGln: 2.188 ± 0.023	2.248GlnArg: 2.248 ± 0.013	2.41GlnSer: 2.41 ± 0.015	1.429GlnThr: 1.429 ± 0.008	2.123GlnVal: 2.123 ± 0.011	0.468GlnTrp: 0.468 ± 0.005	0.867GlnTyr: 0.867 ± 0.007	0.0GlnXaa: 0.0 ± 0.0
Arg	5.108ArgAla: 5.108 ± 0.02	1.381ArgCys: 1.381 ± 0.012	2.962ArgAsp: 2.962 ± 0.014	3.516ArgGlu: 3.516 ± 0.016	2.203ArgPhe: 2.203 ± 0.012	4.49ArgGly: 4.49 ± 0.021	1.756ArgHis: 1.756 ± 0.011	2.673ArgIle: 2.673 ± 0.013	3.272ArgLys: 3.272 ± 0.016	6.133ArgLeu: 6.133 ± 0.023	1.533ArgMet: 1.533 ± 0.01	2.117ArgAsn: 2.117 ± 0.013	3.369ArgPro: 3.369 ± 0.017	2.097ArgGln: 2.097 ± 0.012	7.383ArgArg: 7.383 ± 0.036	5.021ArgSer: 5.021 ± 0.02	2.66ArgThr: 2.66 ± 0.014	3.813ArgVal: 3.813 ± 0.017	1.116ArgTrp: 1.116 ± 0.009	1.584ArgTyr: 1.584 ± 0.011	0.001ArgXaa: 0.001 ± 0.0
Ser	6.539SerAla: 6.539 ± 0.022	1.794SerCys: 1.794 ± 0.011	4.014SerAsp: 4.014 ± 0.018	3.974SerGlu: 3.974 ± 0.02	3.297SerPhe: 3.297 ± 0.015	6.089SerGly: 6.089 ± 0.02	1.866SerHis: 1.866 ± 0.01	3.756SerIle: 3.756 ± 0.017	3.737SerLys: 3.737 ± 0.017	7.994SerLeu: 7.994 ± 0.028	2.029SerMet: 2.029 ± 0.011	3.155SerAsn: 3.155 ± 0.018	5.152SerPro: 5.152 ± 0.025	2.466SerGln: 2.466 ± 0.012	4.841SerArg: 4.841 ± 0.02	10.587SerSer: 10.587 ± 0.042	4.551SerThr: 4.551 ± 0.018	4.83SerVal: 4.83 ± 0.017	1.162SerTrp: 1.162 ± 0.009	2.119SerTyr: 2.119 ± 0.012	0.001SerXaa: 0.001 ± 0.0
Thr	4.476ThrAla: 4.476 ± 0.019	0.948ThrCys: 0.948 ± 0.007	2.274ThrAsp: 2.274 ± 0.012	2.531ThrGlu: 2.531 ± 0.014	1.734ThrPhe: 1.734 ± 0.01	3.509ThrGly: 3.509 ± 0.014	0.973ThrHis: 0.973 ± 0.007	2.351ThrIle: 2.351 ± 0.013	2.207ThrLys: 2.207 ± 0.011	4.208ThrLeu: 4.208 ± 0.016	1.275ThrMet: 1.275 ± 0.009	1.797ThrAsn: 1.797 ± 0.011	2.809ThrPro: 2.809 ± 0.016	1.322ThrGln: 1.322 ± 0.009	2.66ThrArg: 2.66 ± 0.014	4.384ThrSer: 4.384 ± 0.015	3.291ThrThr: 3.291 ± 0.017	3.464ThrVal: 3.464 ± 0.014	0.623ThrTrp: 0.623 ± 0.006	1.249ThrTyr: 1.249 ± 0.01	0.0ThrXaa: 0.0 ± 0.0
Val	6.848ValAla: 6.848 ± 0.025	1.172ValCys: 1.172 ± 0.008	3.877ValAsp: 3.877 ± 0.016	4.074ValGlu: 4.074 ± 0.018	2.479ValPhe: 2.479 ± 0.012	4.55ValGly: 4.55 ± 0.018	1.677ValHis: 1.677 ± 0.01	2.89ValIle: 2.89 ± 0.014	3.051ValLys: 3.051 ± 0.013	6.586ValLeu: 6.586 ± 0.022	1.55ValMet: 1.55 ± 0.01	2.058ValAsn: 2.058 ± 0.01	3.559ValPro: 3.559 ± 0.014	2.241ValGln: 2.241 ± 0.012	3.769ValArg: 3.769 ± 0.018	5.037ValSer: 5.037 ± 0.019	3.265ValThr: 3.265 ± 0.014	5.739ValVal: 5.739 ± 0.023	0.818ValTrp: 0.818 ± 0.006	1.766ValTyr: 1.766 ± 0.011	0.0ValXaa: 0.0 ± 0.0
Trp	0.966TrpAla: 0.966 ± 0.008	0.285TrpCys: 0.285 ± 0.005	0.657TrpAsp: 0.657 ± 0.007	0.742TrpGlu: 0.742 ± 0.006	0.482TrpPhe: 0.482 ± 0.006	0.775TrpGly: 0.775 ± 0.008	0.314TrpHis: 0.314 ± 0.004	0.633TrpIle: 0.633 ± 0.006	0.743TrpLys: 0.743 ± 0.007	1.293TrpLeu: 1.293 ± 0.01	0.381TrpMet: 0.381 ± 0.005	0.572TrpAsn: 0.572 ± 0.007	0.62TrpPro: 0.62 ± 0.005	0.452TrpGln: 0.452 ± 0.005	1.182TrpArg: 1.182 ± 0.007	1.037TrpSer: 1.037 ± 0.007	0.658TrpThr: 0.658 ± 0.007	0.787TrpVal: 0.787 ± 0.007	0.289TrpTrp: 0.289 ± 0.005	0.324TrpTyr: 0.324 ± 0.004	0.0TrpXaa: 0.0 ± 0.0
Tyr	1.858TyrAla: 1.858 ± 0.011	0.6TyrCys: 0.6 ± 0.006	1.447TyrAsp: 1.447 ± 0.009	1.313TyrGlu: 1.313 ± 0.009	1.086TyrPhe: 1.086 ± 0.009	1.94TyrGly: 1.94 ± 0.014	0.706TyrHis: 0.706 ± 0.006	1.282TyrIle: 1.282 ± 0.009	1.18TyrLys: 1.18 ± 0.007	2.63TyrLeu: 2.63 ± 0.013	0.703TyrMet: 0.703 ± 0.006	1.111TyrAsn: 1.111 ± 0.009	1.178TyrPro: 1.178 ± 0.01	0.826TyrGln: 0.826 ± 0.006	1.448TyrArg: 1.448 ± 0.008	1.969TyrSer: 1.969 ± 0.011	1.202TyrThr: 1.202 ± 0.008	1.599TyrVal: 1.599 ± 0.01	0.365TyrTrp: 0.365 ± 0.005	0.904TyrTyr: 0.904 ± 0.007	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	0.001XaaLeu: 0.001 ± 0.0	0.0XaaMet: 0.0 ± 0.0	0.0XaaAsn: 0.0 ± 0.0	0.001XaaPro: 0.001 ± 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	0.01XaaXaa: 0.01 ± 0.002

Statistics based on 46176 proteins (19239447 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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