Amino acid dipepetide frequency for Phytophthora nicotianae (Buckeye rot agent)

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	9.45AlaAla: 9.45 ± 0.053	1.254AlaCys: 1.254 ± 0.015	4.249AlaAsp: 4.249 ± 0.022	5.266AlaGlu: 5.266 ± 0.037	3.209AlaPhe: 3.209 ± 0.019	4.769AlaGly: 4.769 ± 0.032	1.692AlaHis: 1.692 ± 0.016	3.869AlaIle: 3.869 ± 0.025	4.649AlaLys: 4.649 ± 0.03	8.449AlaLeu: 8.449 ± 0.044	2.259AlaMet: 2.259 ± 0.019	3.097AlaAsn: 3.097 ± 0.022	3.959AlaPro: 3.959 ± 0.031	3.438AlaGln: 3.438 ± 0.023	4.742AlaArg: 4.742 ± 0.029	7.483AlaSer: 7.483 ± 0.042	5.67AlaThr: 5.67 ± 0.035	6.177AlaVal: 6.177 ± 0.032	0.909AlaTrp: 0.909 ± 0.013	1.95AlaTyr: 1.95 ± 0.017	0.095AlaXaa: 0.095 ± 0.005
Cys	1.232CysAla: 1.232 ± 0.014	0.398CysCys: 0.398 ± 0.008	0.841CysAsp: 0.841 ± 0.012	0.928CysGlu: 0.928 ± 0.012	0.671CysPhe: 0.671 ± 0.009	1.192CysGly: 1.192 ± 0.015	0.36CysHis: 0.36 ± 0.008	0.786CysIle: 0.786 ± 0.011	0.694CysLys: 0.694 ± 0.01	1.358CysLeu: 1.358 ± 0.016	0.391CysMet: 0.391 ± 0.007	0.544CysAsn: 0.544 ± 0.009	0.753CysPro: 0.753 ± 0.018	0.538CysGln: 0.538 ± 0.009	0.936CysArg: 0.936 ± 0.013	1.406CysSer: 1.406 ± 0.016	0.974CysThr: 0.974 ± 0.012	1.243CysVal: 1.243 ± 0.014	0.222CysTrp: 0.222 ± 0.005	0.466CysTyr: 0.466 ± 0.008	0.016CysXaa: 0.016 ± 0.001
Asp	5.191AspAla: 5.191 ± 0.025	0.816AspCys: 0.816 ± 0.011	4.407AspAsp: 4.407 ± 0.036	4.919AspGlu: 4.919 ± 0.032	2.2AspPhe: 2.2 ± 0.018	3.869AspGly: 3.869 ± 0.028	1.126AspHis: 1.126 ± 0.013	2.624AspIle: 2.624 ± 0.02	2.592AspLys: 2.592 ± 0.022	4.757AspLeu: 4.757 ± 0.024	1.33AspMet: 1.33 ± 0.013	2.059AspAsn: 2.059 ± 0.018	2.549AspPro: 2.549 ± 0.018	1.926AspGln: 1.926 ± 0.017	2.744AspArg: 2.744 ± 0.023	4.329AspSer: 4.329 ± 0.024	3.146AspThr: 3.146 ± 0.021	4.396AspVal: 4.396 ± 0.026	0.631AspTrp: 0.631 ± 0.011	1.489AspTyr: 1.489 ± 0.014	0.064AspXaa: 0.064 ± 0.003
Glu	5.808GluAla: 5.808 ± 0.037	0.928GluCys: 0.928 ± 0.012	4.341GluAsp: 4.341 ± 0.029	6.067GluGlu: 6.067 ± 0.052	2.315GluPhe: 2.315 ± 0.017	3.212GluGly: 3.212 ± 0.021	1.465GluHis: 1.465 ± 0.015	3.047GluIle: 3.047 ± 0.023	3.971GluLys: 3.971 ± 0.032	6.716GluLeu: 6.716 ± 0.04	1.781GluMet: 1.781 ± 0.015	2.647GluAsn: 2.647 ± 0.02	2.289GluPro: 2.289 ± 0.021	3.068GluGln: 3.068 ± 0.023	4.16GluArg: 4.16 ± 0.033	4.491GluSer: 4.491 ± 0.03	3.684GluThr: 3.684 ± 0.024	4.144GluVal: 4.144 ± 0.026	0.768GluTrp: 0.768 ± 0.01	1.707GluTyr: 1.707 ± 0.016	0.075GluXaa: 0.075 ± 0.004
Phe	3.096PheAla: 3.096 ± 0.023	0.709PheCys: 0.709 ± 0.011	2.349PheAsp: 2.349 ± 0.018	2.295PheGlu: 2.295 ± 0.021	1.657PhePhe: 1.657 ± 0.018	2.743PheGly: 2.743 ± 0.023	0.931PheHis: 0.931 ± 0.011	1.607PheIle: 1.607 ± 0.014	1.559PheLys: 1.559 ± 0.015	3.517PheLeu: 3.517 ± 0.024	0.93PheMet: 0.93 ± 0.01	1.39PheAsn: 1.39 ± 0.014	1.644PhePro: 1.644 ± 0.014	1.524PheGln: 1.524 ± 0.015	2.089PheArg: 2.089 ± 0.018	2.987PheSer: 2.987 ± 0.02	2.142PheThr: 2.142 ± 0.017	2.918PheVal: 2.918 ± 0.022	0.465PheTrp: 0.465 ± 0.008	1.194PheTyr: 1.194 ± 0.013	0.035PheXaa: 0.035 ± 0.002
Gly	4.797GlyAla: 4.797 ± 0.03	1.031GlyCys: 1.031 ± 0.016	3.71GlyAsp: 3.71 ± 0.027	3.522GlyGlu: 3.522 ± 0.023	2.439GlyPhe: 2.439 ± 0.02	4.723GlyGly: 4.723 ± 0.047	1.425GlyHis: 1.425 ± 0.019	2.838GlyIle: 2.838 ± 0.022	3.2GlyLys: 3.2 ± 0.022	4.822GlyLeu: 4.822 ± 0.029	1.443GlyMet: 1.443 ± 0.014	2.461GlyAsn: 2.461 ± 0.022	1.945GlyPro: 1.945 ± 0.02	1.926GlyGln: 1.926 ± 0.018	3.232GlyArg: 3.232 ± 0.023	5.374GlySer: 5.374 ± 0.04	3.406GlyThr: 3.406 ± 0.027	4.484GlyVal: 4.484 ± 0.028	0.773GlyTrp: 0.773 ± 0.01	1.87GlyTyr: 1.87 ± 0.021	0.066GlyXaa: 0.066 ± 0.003
His	1.797HisAla: 1.797 ± 0.014	0.412HisCys: 0.412 ± 0.008	1.239HisAsp: 1.239 ± 0.013	1.481HisGlu: 1.481 ± 0.018	0.988HisPhe: 0.988 ± 0.011	1.511HisGly: 1.511 ± 0.019	0.704HisHis: 0.704 ± 0.011	0.964HisIle: 0.964 ± 0.012	1.007HisLys: 1.007 ± 0.013	2.194HisLeu: 2.194 ± 0.02	0.474HisMet: 0.474 ± 0.008	0.76HisAsn: 0.76 ± 0.009	1.212HisPro: 1.212 ± 0.013	0.989HisGln: 0.989 ± 0.01	1.527HisArg: 1.527 ± 0.017	1.751HisSer: 1.751 ± 0.015	1.16HisThr: 1.16 ± 0.012	1.687HisVal: 1.687 ± 0.016	0.294HisTrp: 0.294 ± 0.007	0.693HisTyr: 0.693 ± 0.012	0.024HisXaa: 0.024 ± 0.002
Ile	3.873IleAla: 3.873 ± 0.024	0.8IleCys: 0.8 ± 0.01	2.605IleAsp: 2.605 ± 0.019	2.787IleGlu: 2.787 ± 0.021	1.689IlePhe: 1.689 ± 0.016	2.565IleGly: 2.565 ± 0.019	0.99IleHis: 0.99 ± 0.011	1.829IleIle: 1.829 ± 0.016	2.089IleLys: 2.089 ± 0.019	3.762IleLeu: 3.762 ± 0.026	0.98IleMet: 0.98 ± 0.013	1.571IleAsn: 1.571 ± 0.015	2.216IlePro: 2.216 ± 0.021	1.808IleGln: 1.808 ± 0.017	2.522IleArg: 2.522 ± 0.021	3.398IleSer: 3.398 ± 0.024	2.504IleThr: 2.504 ± 0.019	3.316IleVal: 3.316 ± 0.023	0.511IleTrp: 0.511 ± 0.009	1.172IleTyr: 1.172 ± 0.012	0.044IleXaa: 0.044 ± 0.003
Lys	4.183LysAla: 4.183 ± 0.03	0.756LysCys: 0.756 ± 0.013	2.553LysAsp: 2.553 ± 0.018	3.562LysGlu: 3.562 ± 0.027	1.742LysPhe: 1.742 ± 0.016	2.367LysGly: 2.367 ± 0.019	1.278LysHis: 1.278 ± 0.015	2.188LysIle: 2.188 ± 0.018	4.115LysLys: 4.115 ± 0.037	5.247LysLeu: 5.247 ± 0.032	1.378LysMet: 1.378 ± 0.014	2.01LysAsn: 2.01 ± 0.018	2.322LysPro: 2.322 ± 0.021	2.468LysGln: 2.468 ± 0.02	3.897LysArg: 3.897 ± 0.03	3.621LysSer: 3.621 ± 0.026	3.295LysThr: 3.295 ± 0.025	3.067LysVal: 3.067 ± 0.023	0.738LysTrp: 0.738 ± 0.01	1.545LysTyr: 1.545 ± 0.015	0.069LysXaa: 0.069 ± 0.003
Leu	7.958LeuAla: 7.958 ± 0.036	1.527LeuCys: 1.527 ± 0.016	5.183LeuAsp: 5.183 ± 0.025	6.511LeuGlu: 6.511 ± 0.039	3.489LeuPhe: 3.489 ± 0.029	4.923LeuGly: 4.923 ± 0.029	2.491LeuHis: 2.491 ± 0.022	3.376LeuIle: 3.376 ± 0.025	4.825LeuLys: 4.825 ± 0.028	9.8LeuLeu: 9.8 ± 0.059	2.201LeuMet: 2.201 ± 0.015	3.318LeuAsn: 3.318 ± 0.025	4.509LeuPro: 4.509 ± 0.026	4.787LeuGln: 4.787 ± 0.029	6.27LeuArg: 6.27 ± 0.035	7.323LeuSer: 7.323 ± 0.034	5.076LeuThr: 5.076 ± 0.029	6.482LeuVal: 6.482 ± 0.037	1.039LeuTrp: 1.039 ± 0.012	2.368LeuTyr: 2.368 ± 0.021	0.096LeuXaa: 0.096 ± 0.004
Met	2.208MetAla: 2.208 ± 0.018	0.365MetCys: 0.365 ± 0.008	1.466MetAsp: 1.466 ± 0.014	1.787MetGlu: 1.787 ± 0.017	0.809MetPhe: 0.809 ± 0.01	1.352MetGly: 1.352 ± 0.015	0.562MetHis: 0.562 ± 0.008	0.983MetIle: 0.983 ± 0.013	1.418MetLys: 1.418 ± 0.015	2.421MetLeu: 2.421 ± 0.018	0.684MetMet: 0.684 ± 0.01	0.942MetAsn: 0.942 ± 0.01	1.067MetPro: 1.067 ± 0.013	1.125MetGln: 1.125 ± 0.012	1.443MetArg: 1.443 ± 0.014	1.798MetSer: 1.798 ± 0.016	1.487MetThr: 1.487 ± 0.014	1.524MetVal: 1.524 ± 0.013	0.301MetTrp: 0.301 ± 0.007	0.651MetTyr: 0.651 ± 0.01	0.029MetXaa: 0.029 ± 0.002
Asn	3.479AsnAla: 3.479 ± 0.025	0.635AsnCys: 0.635 ± 0.011	2.161AsnAsp: 2.161 ± 0.017	2.436AsnGlu: 2.436 ± 0.018	1.348AsnPhe: 1.348 ± 0.014	2.889AsnGly: 2.889 ± 0.023	0.779AsnHis: 0.779 ± 0.01	1.606AsnIle: 1.606 ± 0.018	1.735AsnLys: 1.735 ± 0.015	3.082AsnLeu: 3.082 ± 0.022	0.907AsnMet: 0.907 ± 0.011	1.48AsnAsn: 1.48 ± 0.017	1.862AsnPro: 1.862 ± 0.018	1.399AsnGln: 1.399 ± 0.016	1.962AsnArg: 1.962 ± 0.016	2.983AsnSer: 2.983 ± 0.021	2.204AsnThr: 2.204 ± 0.018	2.806AsnVal: 2.806 ± 0.02	0.464AsnTrp: 0.464 ± 0.007	1.043AsnTyr: 1.043 ± 0.011	0.044AsnXaa: 0.044 ± 0.002
Pro	3.953ProAla: 3.953 ± 0.032	0.544ProCys: 0.544 ± 0.012	2.399ProAsp: 2.399 ± 0.021	2.998ProGlu: 2.998 ± 0.022	1.637ProPhe: 1.637 ± 0.014	2.482ProGly: 2.482 ± 0.021	0.995ProHis: 0.995 ± 0.01	1.825ProIle: 1.825 ± 0.015	2.249ProLys: 2.249 ± 0.018	3.961ProLeu: 3.961 ± 0.024	1.069ProMet: 1.069 ± 0.011	1.654ProAsn: 1.654 ± 0.013	3.18ProPro: 3.18 ± 0.035	1.771ProGln: 1.771 ± 0.015	2.66ProArg: 2.66 ± 0.022	4.479ProSer: 4.479 ± 0.028	3.394ProThr: 3.394 ± 0.029	3.399ProVal: 3.399 ± 0.025	0.487ProTrp: 0.487 ± 0.008	1.051ProTyr: 1.051 ± 0.013	0.051ProXaa: 0.051 ± 0.003
Gln	3.244GlnAla: 3.244 ± 0.025	0.61GlnCys: 0.61 ± 0.01	2.011GlnAsp: 2.011 ± 0.014	2.907GlnGlu: 2.907 ± 0.023	1.441GlnPhe: 1.441 ± 0.013	1.817GlnGly: 1.817 ± 0.015	1.208GlnHis: 1.208 ± 0.012	1.788GlnIle: 1.788 ± 0.015	2.177GlnLys: 2.177 ± 0.018	4.617GlnLeu: 4.617 ± 0.033	1.075GlnMet: 1.075 ± 0.012	1.473GlnAsn: 1.473 ± 0.015	1.794GlnPro: 1.794 ± 0.017	3.004GlnGln: 3.004 ± 0.03	3.171GlnArg: 3.171 ± 0.023	2.88GlnSer: 2.88 ± 0.023	2.384GlnThr: 2.384 ± 0.019	2.717GlnVal: 2.717 ± 0.019	0.602GlnTrp: 0.602 ± 0.01	1.121GlnTyr: 1.121 ± 0.013	0.042GlnXaa: 0.042 ± 0.002
Arg	4.741ArgAla: 4.741 ± 0.028	0.963ArgCys: 0.963 ± 0.012	3.14ArgAsp: 3.14 ± 0.021	3.981ArgGlu: 3.981 ± 0.032	2.342ArgPhe: 2.342 ± 0.017	3.401ArgGly: 3.401 ± 0.025	1.543ArgHis: 1.543 ± 0.015	2.619ArgIle: 2.619 ± 0.018	3.562ArgLys: 3.562 ± 0.023	5.7ArgLeu: 5.7 ± 0.034	1.454ArgMet: 1.454 ± 0.014	2.198ArgAsn: 2.198 ± 0.016	2.348ArgPro: 2.348 ± 0.02	2.83ArgGln: 2.83 ± 0.024	5.164ArgArg: 5.164 ± 0.043	4.929ArgSer: 4.929 ± 0.036	3.025ArgThr: 3.025 ± 0.018	4.225ArgVal: 4.225 ± 0.026	0.827ArgTrp: 0.827 ± 0.011	1.64ArgTyr: 1.64 ± 0.017	0.059ArgXaa: 0.059 ± 0.003
Ser	6.792SerAla: 6.792 ± 0.034	1.246SerCys: 1.246 ± 0.014	4.786SerAsp: 4.786 ± 0.026	4.609SerGlu: 4.609 ± 0.028	3.071SerPhe: 3.071 ± 0.019	5.43SerGly: 5.43 ± 0.039	1.566SerHis: 1.566 ± 0.016	3.588SerIle: 3.588 ± 0.026	3.984SerLys: 3.984 ± 0.026	6.876SerLeu: 6.876 ± 0.034	1.924SerMet: 1.924 ± 0.016	3.203SerAsn: 3.203 ± 0.024	4.215SerPro: 4.215 ± 0.033	2.728SerGln: 2.728 ± 0.024	4.551SerArg: 4.551 ± 0.034	9.771SerSer: 9.771 ± 0.065	5.993SerThr: 5.993 ± 0.035	5.536SerVal: 5.536 ± 0.031	0.941SerTrp: 0.941 ± 0.009	1.989SerTyr: 1.989 ± 0.018	0.082SerXaa: 0.082 ± 0.004
Thr	5.372ThrAla: 5.372 ± 0.03	0.94ThrCys: 0.94 ± 0.011	3.022ThrAsp: 3.022 ± 0.024	3.491ThrGlu: 3.491 ± 0.024	2.169ThrPhe: 2.169 ± 0.018	3.745ThrGly: 3.745 ± 0.028	1.207ThrHis: 1.207 ± 0.013	2.742ThrIle: 2.742 ± 0.019	3.085ThrLys: 3.085 ± 0.024	5.511ThrLeu: 5.511 ± 0.03	1.38ThrMet: 1.38 ± 0.013	2.18ThrAsn: 2.18 ± 0.018	3.629ThrPro: 3.629 ± 0.03	2.352ThrGln: 2.352 ± 0.018	3.271ThrArg: 3.271 ± 0.023	5.6ThrSer: 5.6 ± 0.032	4.502ThrThr: 4.502 ± 0.036	4.02ThrVal: 4.02 ± 0.027	0.693ThrTrp: 0.693 ± 0.011	1.455ThrTyr: 1.455 ± 0.018	0.061ThrXaa: 0.061 ± 0.003
Val	6.482ValAla: 6.482 ± 0.034	1.243ValCys: 1.243 ± 0.014	4.336ValAsp: 4.336 ± 0.026	4.724ValGlu: 4.724 ± 0.031	2.828ValPhe: 2.828 ± 0.021	3.949ValGly: 3.949 ± 0.028	1.58ValHis: 1.58 ± 0.015	2.958ValIle: 2.958 ± 0.02	3.514ValLys: 3.514 ± 0.024	6.871ValLeu: 6.871 ± 0.038	1.689ValMet: 1.689 ± 0.012	2.647ValAsn: 2.647 ± 0.019	3.173ValPro: 3.173 ± 0.02	2.843ValGln: 2.843 ± 0.02	3.847ValArg: 3.847 ± 0.023	5.332ValSer: 5.332 ± 0.031	4.083ValThr: 4.083 ± 0.032	5.68ValVal: 5.68 ± 0.032	0.803ValTrp: 0.803 ± 0.011	1.929ValTyr: 1.929 ± 0.016	0.07ValXaa: 0.07 ± 0.003
Trp	0.727TrpAla: 0.727 ± 0.009	0.205TrpCys: 0.205 ± 0.005	0.679TrpAsp: 0.679 ± 0.009	0.677TrpGlu: 0.677 ± 0.009	0.498TrpPhe: 0.498 ± 0.009	0.671TrpGly: 0.671 ± 0.011	0.284TrpHis: 0.284 ± 0.006	0.634TrpIle: 0.634 ± 0.01	0.769TrpLys: 0.769 ± 0.011	1.265TrpLeu: 1.265 ± 0.018	0.395TrpMet: 0.395 ± 0.008	0.57TrpAsn: 0.57 ± 0.009	0.383TrpPro: 0.383 ± 0.008	0.48TrpGln: 0.48 ± 0.008	0.813TrpArg: 0.813 ± 0.01	0.91TrpSer: 0.91 ± 0.013	0.76TrpThr: 0.76 ± 0.012	0.73TrpVal: 0.73 ± 0.01	0.183TrpTrp: 0.183 ± 0.005	0.395TrpTyr: 0.395 ± 0.008	0.014TrpXaa: 0.014 ± 0.001
Tyr	2.165TyrAla: 2.165 ± 0.018	0.551TyrCys: 0.551 ± 0.01	1.622TyrAsp: 1.622 ± 0.015	1.666TyrGlu: 1.666 ± 0.017	1.202TyrPhe: 1.202 ± 0.015	1.813TyrGly: 1.813 ± 0.021	0.654TyrHis: 0.654 ± 0.01	1.113TyrIle: 1.113 ± 0.012	1.146TyrLys: 1.146 ± 0.014	2.535TyrLeu: 2.535 ± 0.02	0.653TyrMet: 0.653 ± 0.009	1.061TyrAsn: 1.061 ± 0.013	1.134TyrPro: 1.134 ± 0.014	1.034TyrGln: 1.034 ± 0.012	1.627TyrArg: 1.627 ± 0.015	1.95TyrSer: 1.95 ± 0.017	1.473TyrThr: 1.473 ± 0.013	1.958TyrVal: 1.958 ± 0.017	0.376TyrTrp: 0.376 ± 0.007	0.902TyrTyr: 0.902 ± 0.012	0.024TyrXaa: 0.024 ± 0.002
Xaa	0.088XaaAla: 0.088 ± 0.004	0.016XaaCys: 0.016 ± 0.001	0.062XaaAsp: 0.062 ± 0.003	0.071XaaGlu: 0.071 ± 0.003	0.038XaaPhe: 0.038 ± 0.003	0.064XaaGly: 0.064 ± 0.003	0.026XaaHis: 0.026 ± 0.002	0.047XaaIle: 0.047 ± 0.003	0.061XaaLys: 0.061 ± 0.003	0.091XaaLeu: 0.091 ± 0.004	0.026XaaMet: 0.026 ± 0.002	0.038XaaAsn: 0.038 ± 0.003	0.056XaaPro: 0.056 ± 0.003	0.047XaaGln: 0.047 ± 0.003	0.064XaaArg: 0.064 ± 0.003	0.088XaaSer: 0.088 ± 0.004	0.065XaaThr: 0.065 ± 0.003	0.07XaaVal: 0.07 ± 0.003	0.013XaaTrp: 0.013 ± 0.001	0.027XaaTyr: 0.027 ± 0.002	0.069XaaXaa: 0.069 ± 0.005

Statistics based on 15887 proteins (8238870 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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