Amino acid dipepetide frequency for Ruegeria lacuscaerulensis (strain DSM 11314 / KCTC 2953 / ITI-1157) (Silicibacter lacuscaerulensis)

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	15.676AlaAla: 15.676 ± 0.163	1.1AlaCys: 1.1 ± 0.038	6.84AlaAsp: 6.84 ± 0.085	8.297AlaGlu: 8.297 ± 0.109	4.109AlaPhe: 4.109 ± 0.062	9.842AlaGly: 9.842 ± 0.091	2.383AlaHis: 2.383 ± 0.053	5.745AlaIle: 5.745 ± 0.075	3.916AlaLys: 3.916 ± 0.07	12.916AlaLeu: 12.916 ± 0.142	3.741AlaMet: 3.741 ± 0.062	2.721AlaAsn: 2.721 ± 0.055	5.528AlaPro: 5.528 ± 0.099	4.896AlaGln: 4.896 ± 0.084	8.787AlaArg: 8.787 ± 0.116	5.148AlaSer: 5.148 ± 0.07	5.547AlaThr: 5.547 ± 0.067	8.272AlaVal: 8.272 ± 0.091	1.425AlaTrp: 1.425 ± 0.033	2.557AlaTyr: 2.557 ± 0.051	0.004AlaXaa: 0.004 ± 0.002
Cys	1.201CysAla: 1.201 ± 0.03	0.123CysCys: 0.123 ± 0.01	0.626CysAsp: 0.626 ± 0.027	0.442CysGlu: 0.442 ± 0.022	0.346CysPhe: 0.346 ± 0.019	0.979CysGly: 0.979 ± 0.033	0.307CysHis: 0.307 ± 0.017	0.456CysIle: 0.456 ± 0.022	0.242CysLys: 0.242 ± 0.016	0.856CysLeu: 0.856 ± 0.026	0.209CysMet: 0.209 ± 0.015	0.256CysAsn: 0.256 ± 0.016	0.544CysPro: 0.544 ± 0.025	0.264CysGln: 0.264 ± 0.016	0.621CysArg: 0.621 ± 0.023	0.523CysSer: 0.523 ± 0.024	0.463CysThr: 0.463 ± 0.022	0.64CysVal: 0.64 ± 0.027	0.133CysTrp: 0.133 ± 0.01	0.246CysTyr: 0.246 ± 0.015	0.0CysXaa: 0.0 ± 0.0
Asp	6.827AspAla: 6.827 ± 0.086	0.575AspCys: 0.575 ± 0.025	3.368AspAsp: 3.368 ± 0.069	3.646AspGlu: 3.646 ± 0.062	2.299AspPhe: 2.299 ± 0.044	5.423AspGly: 5.423 ± 0.085	1.432AspHis: 1.432 ± 0.04	3.045AspIle: 3.045 ± 0.047	1.876AspLys: 1.876 ± 0.046	6.656AspLeu: 6.656 ± 0.084	1.685AspMet: 1.685 ± 0.037	1.287AspAsn: 1.287 ± 0.039	3.897AspPro: 3.897 ± 0.059	2.181AspGln: 2.181 ± 0.048	4.652AspArg: 4.652 ± 0.067	2.182AspSer: 2.182 ± 0.045	2.852AspThr: 2.852 ± 0.055	4.235AspVal: 4.235 ± 0.059	1.244AspTrp: 1.244 ± 0.037	1.569AspTyr: 1.569 ± 0.043	0.001AspXaa: 0.001 ± 0.001
Glu	7.593GluAla: 7.593 ± 0.107	0.42GluCys: 0.42 ± 0.02	3.459GluAsp: 3.459 ± 0.058	3.418GluGlu: 3.418 ± 0.077	2.002GluPhe: 2.002 ± 0.042	4.407GluGly: 4.407 ± 0.067	1.168GluHis: 1.168 ± 0.033	3.859GluIle: 3.859 ± 0.066	2.36GluLys: 2.36 ± 0.055	5.345GluLeu: 5.345 ± 0.074	1.825GluMet: 1.825 ± 0.044	1.924GluAsn: 1.924 ± 0.041	2.666GluPro: 2.666 ± 0.055	2.233GluGln: 2.233 ± 0.043	4.183GluArg: 4.183 ± 0.063	2.153GluSer: 2.153 ± 0.053	3.791GluThr: 3.791 ± 0.066	4.184GluVal: 4.184 ± 0.066	0.755GluTrp: 0.755 ± 0.026	1.193GluTyr: 1.193 ± 0.033	0.002GluXaa: 0.002 ± 0.001
Phe	4.405PheAla: 4.405 ± 0.072	0.471PheCys: 0.471 ± 0.022	2.951PheAsp: 2.951 ± 0.062	2.252PheGlu: 2.252 ± 0.051	1.452PhePhe: 1.452 ± 0.046	3.615PheGly: 3.615 ± 0.065	0.772PheHis: 0.772 ± 0.027	1.668PheIle: 1.668 ± 0.041	1.007PheLys: 1.007 ± 0.03	3.502PheLeu: 3.502 ± 0.064	0.878PheMet: 0.878 ± 0.031	1.061PheAsn: 1.061 ± 0.032	1.591PhePro: 1.591 ± 0.04	1.148PheGln: 1.148 ± 0.034	2.168PheArg: 2.168 ± 0.044	2.203PheSer: 2.203 ± 0.049	1.987PheThr: 1.987 ± 0.042	2.657PheVal: 2.657 ± 0.059	0.587PheTrp: 0.587 ± 0.024	0.972PheTyr: 0.972 ± 0.029	0.002PheXaa: 0.002 ± 0.001
Gly	9.216GlyAla: 9.216 ± 0.104	0.916GlyCys: 0.916 ± 0.033	4.626GlyAsp: 4.626 ± 0.07	4.435GlyGlu: 4.435 ± 0.057	3.688GlyPhe: 3.688 ± 0.057	7.035GlyGly: 7.035 ± 0.121	1.957GlyHis: 1.957 ± 0.041	4.291GlyIle: 4.291 ± 0.079	3.405GlyLys: 3.405 ± 0.068	9.099GlyLeu: 9.099 ± 0.119	2.503GlyMet: 2.503 ± 0.044	2.174GlyAsn: 2.174 ± 0.052	3.807GlyPro: 3.807 ± 0.059	3.359GlyGln: 3.359 ± 0.06	5.583GlyArg: 5.583 ± 0.079	4.048GlySer: 4.048 ± 0.062	4.449GlyThr: 4.449 ± 0.072	6.44GlyVal: 6.44 ± 0.076	1.468GlyTrp: 1.468 ± 0.037	2.335GlyTyr: 2.335 ± 0.051	0.006GlyXaa: 0.006 ± 0.002
His	2.288HisAla: 2.288 ± 0.049	0.257HisCys: 0.257 ± 0.016	1.353HisAsp: 1.353 ± 0.036	1.092HisGlu: 1.092 ± 0.031	0.835HisPhe: 0.835 ± 0.032	1.951HisGly: 1.951 ± 0.049	0.587HisHis: 0.587 ± 0.027	0.933HisIle: 0.933 ± 0.033	0.561HisLys: 0.561 ± 0.025	2.238HisLeu: 2.238 ± 0.04	0.558HisMet: 0.558 ± 0.023	0.458HisAsn: 0.458 ± 0.021	1.477HisPro: 1.477 ± 0.041	0.66HisGln: 0.66 ± 0.025	1.464HisArg: 1.464 ± 0.035	1.007HisSer: 1.007 ± 0.03	0.832HisThr: 0.832 ± 0.03	1.592HisVal: 1.592 ± 0.044	0.359HisTrp: 0.359 ± 0.021	0.553HisTyr: 0.553 ± 0.022	0.0HisXaa: 0.0 ± 0.0
Ile	6.689IleAla: 6.689 ± 0.081	0.61IleCys: 0.61 ± 0.026	3.528IleAsp: 3.528 ± 0.054	3.687IleGlu: 3.687 ± 0.058	1.699IlePhe: 1.699 ± 0.041	4.719IleGly: 4.719 ± 0.074	0.934IleHis: 0.934 ± 0.031	2.197IleIle: 2.197 ± 0.051	1.549IleLys: 1.549 ± 0.044	4.906IleLeu: 4.906 ± 0.083	1.105IleMet: 1.105 ± 0.032	1.371IleAsn: 1.371 ± 0.036	2.535IlePro: 2.535 ± 0.042	1.378IleGln: 1.378 ± 0.035	3.399IleArg: 3.399 ± 0.063	2.894IleSer: 2.894 ± 0.054	2.743IleThr: 2.743 ± 0.052	3.719IleVal: 3.719 ± 0.067	0.771IleTrp: 0.771 ± 0.022	1.137IleTyr: 1.137 ± 0.036	0.002IleXaa: 0.002 ± 0.001
Lys	4.151LysAla: 4.151 ± 0.073	0.226LysCys: 0.226 ± 0.014	1.836LysAsp: 1.836 ± 0.043	1.699LysGlu: 1.699 ± 0.045	1.02LysPhe: 1.02 ± 0.033	2.845LysGly: 2.845 ± 0.058	0.624LysHis: 0.624 ± 0.024	1.799LysIle: 1.799 ± 0.043	1.401LysLys: 1.401 ± 0.046	3.211LysLeu: 3.211 ± 0.054	0.936LysMet: 0.936 ± 0.029	0.894LysAsn: 0.894 ± 0.031	2.008LysPro: 2.008 ± 0.046	1.098LysGln: 1.098 ± 0.032	2.334LysArg: 2.334 ± 0.051	1.817LysSer: 1.817 ± 0.045	2.112LysThr: 2.112 ± 0.048	2.477LysVal: 2.477 ± 0.054	0.445LysTrp: 0.445 ± 0.019	0.753LysTyr: 0.753 ± 0.03	0.001LysXaa: 0.001 ± 0.001
Leu	12.308LeuAla: 12.308 ± 0.132	0.954LeuCys: 0.954 ± 0.029	6.046LeuAsp: 6.046 ± 0.09	5.257LeuGlu: 5.257 ± 0.084	3.55LeuPhe: 3.55 ± 0.069	8.252LeuGly: 8.252 ± 0.106	1.946LeuHis: 1.946 ± 0.041	5.259LeuIle: 5.259 ± 0.085	3.453LeuLys: 3.453 ± 0.048	8.668LeuLeu: 8.668 ± 0.117	2.636LeuMet: 2.636 ± 0.051	2.898LeuAsn: 2.898 ± 0.059	5.538LeuPro: 5.538 ± 0.076	2.946LeuGln: 2.946 ± 0.057	7.015LeuArg: 7.015 ± 0.102	6.341LeuSer: 6.341 ± 0.083	6.05LeuThr: 6.05 ± 0.076	6.79LeuVal: 6.79 ± 0.092	1.348LeuTrp: 1.348 ± 0.038	1.938LeuTyr: 1.938 ± 0.048	0.002LeuXaa: 0.002 ± 0.001
Met	3.435MetAla: 3.435 ± 0.066	0.217MetCys: 0.217 ± 0.013	1.457MetAsp: 1.457 ± 0.036	1.333MetGlu: 1.333 ± 0.035	0.82MetPhe: 0.82 ± 0.03	2.213MetGly: 2.213 ± 0.05	0.51MetHis: 0.51 ± 0.024	1.535MetIle: 1.535 ± 0.041	1.097MetLys: 1.097 ± 0.034	2.6MetLeu: 2.6 ± 0.058	0.777MetMet: 0.777 ± 0.027	0.907MetAsn: 0.907 ± 0.029	1.505MetPro: 1.505 ± 0.038	1.104MetGln: 1.104 ± 0.033	1.91MetArg: 1.91 ± 0.042	1.697MetSer: 1.697 ± 0.036	2.079MetThr: 2.079 ± 0.045	1.892MetVal: 1.892 ± 0.049	0.258MetTrp: 0.258 ± 0.016	0.349MetTyr: 0.349 ± 0.021	0.0MetXaa: 0.0 ± 0.0
Asn	3.123AsnAla: 3.123 ± 0.055	0.291AsnCys: 0.291 ± 0.017	1.488AsnAsp: 1.488 ± 0.043	1.216AsnGlu: 1.216 ± 0.033	0.998AsnPhe: 0.998 ± 0.029	2.511AsnGly: 2.511 ± 0.048	0.518AsnHis: 0.518 ± 0.021	1.373AsnIle: 1.373 ± 0.037	0.769AsnLys: 0.769 ± 0.027	2.602AsnLeu: 2.602 ± 0.051	0.691AsnMet: 0.691 ± 0.025	0.646AsnAsn: 0.646 ± 0.024	1.996AsnPro: 1.996 ± 0.034	0.823AsnGln: 0.823 ± 0.026	1.915AsnArg: 1.915 ± 0.039	1.219AsnSer: 1.219 ± 0.037	1.402AsnThr: 1.402 ± 0.036	1.796AsnVal: 1.796 ± 0.052	0.497AsnTrp: 0.497 ± 0.024	0.674AsnTyr: 0.674 ± 0.025	0.0AsnXaa: 0.0 ± 0.0
Pro	5.621ProAla: 5.621 ± 0.092	0.411ProCys: 0.411 ± 0.019	4.212ProAsp: 4.212 ± 0.058	4.382ProGlu: 4.382 ± 0.073	1.989ProPhe: 1.989 ± 0.041	4.663ProGly: 4.663 ± 0.069	1.106ProHis: 1.106 ± 0.03	2.386ProIle: 2.386 ± 0.048	1.807ProLys: 1.807 ± 0.043	4.555ProLeu: 4.555 ± 0.072	1.308ProMet: 1.308 ± 0.039	1.468ProAsn: 1.468 ± 0.043	2.319ProPro: 2.319 ± 0.056	1.798ProGln: 1.798 ± 0.044	2.878ProArg: 2.878 ± 0.054	2.516ProSer: 2.516 ± 0.051	2.489ProThr: 2.489 ± 0.045	4.346ProVal: 4.346 ± 0.062	0.719ProTrp: 0.719 ± 0.027	1.214ProTyr: 1.214 ± 0.036	0.002ProXaa: 0.002 ± 0.001
Gln	4.736GlnAla: 4.736 ± 0.082	0.235GlnCys: 0.235 ± 0.015	1.913GlnAsp: 1.913 ± 0.048	1.68GlnGlu: 1.68 ± 0.041	1.191GlnPhe: 1.191 ± 0.034	2.873GlnGly: 2.873 ± 0.053	0.634GlnHis: 0.634 ± 0.025	2.213GlnIle: 2.213 ± 0.046	1.211GlnLys: 1.211 ± 0.034	2.99GlnLeu: 2.99 ± 0.057	1.194GlnMet: 1.194 ± 0.034	0.969GlnAsn: 0.969 ± 0.025	1.862GlnPro: 1.862 ± 0.045	1.283GlnGln: 1.283 ± 0.045	2.446GlnArg: 2.446 ± 0.053	1.761GlnSer: 1.761 ± 0.047	1.876GlnThr: 1.876 ± 0.045	2.714GlnVal: 2.714 ± 0.047	0.437GlnTrp: 0.437 ± 0.02	0.663GlnTyr: 0.663 ± 0.023	0.0GlnXaa: 0.0 ± 0.0
Arg	8.196ArgAla: 8.196 ± 0.104	0.547ArgCys: 0.547 ± 0.023	4.287ArgAsp: 4.287 ± 0.067	3.768ArgGlu: 3.768 ± 0.065	2.738ArgPhe: 2.738 ± 0.052	4.607ArgGly: 4.607 ± 0.062	1.612ArgHis: 1.612 ± 0.041	3.915ArgIle: 3.915 ± 0.067	2.577ArgLys: 2.577 ± 0.052	7.313ArgLeu: 7.313 ± 0.114	2.03ArgMet: 2.03 ± 0.041	1.929ArgAsn: 1.929 ± 0.037	3.55ArgPro: 3.55 ± 0.064	2.576ArgGln: 2.576 ± 0.054	5.182ArgArg: 5.182 ± 0.088	3.282ArgSer: 3.282 ± 0.052	3.007ArgThr: 3.007 ± 0.056	4.777ArgVal: 4.777 ± 0.067	0.985ArgTrp: 0.985 ± 0.035	1.521ArgTyr: 1.521 ± 0.038	0.001ArgXaa: 0.001 ± 0.001
Ser	5.635SerAla: 5.635 ± 0.074	0.464SerCys: 0.464 ± 0.023	3.33SerAsp: 3.33 ± 0.057	2.83SerGlu: 2.83 ± 0.063	2.114SerPhe: 2.114 ± 0.047	5.243SerGly: 5.243 ± 0.073	1.079SerHis: 1.079 ± 0.035	2.359SerIle: 2.359 ± 0.048	1.558SerLys: 1.558 ± 0.037	4.652SerLeu: 4.652 ± 0.077	1.365SerMet: 1.365 ± 0.036	1.334SerAsn: 1.334 ± 0.03	2.512SerPro: 2.512 ± 0.046	1.67SerGln: 1.67 ± 0.037	3.191SerArg: 3.191 ± 0.061	2.344SerSer: 2.344 ± 0.054	2.347SerThr: 2.347 ± 0.052	3.806SerVal: 3.806 ± 0.052	0.677SerTrp: 0.677 ± 0.021	1.219SerTyr: 1.219 ± 0.037	0.003SerXaa: 0.003 ± 0.002
Thr	5.955ThrAla: 5.955 ± 0.089	0.523ThrCys: 0.523 ± 0.024	3.103ThrAsp: 3.103 ± 0.057	3.093ThrGlu: 3.093 ± 0.054	1.959ThrPhe: 1.959 ± 0.044	5.215ThrGly: 5.215 ± 0.073	1.184ThrHis: 1.184 ± 0.035	2.713ThrIle: 2.713 ± 0.051	1.484ThrLys: 1.484 ± 0.041	5.589ThrLeu: 5.589 ± 0.076	1.221ThrMet: 1.221 ± 0.035	1.272ThrAsn: 1.272 ± 0.033	3.331ThrPro: 3.331 ± 0.061	1.7ThrGln: 1.7 ± 0.039	3.564ThrArg: 3.564 ± 0.066	2.374ThrSer: 2.374 ± 0.048	2.621ThrThr: 2.621 ± 0.054	4.156ThrVal: 4.156 ± 0.062	0.664ThrTrp: 0.664 ± 0.022	1.257ThrTyr: 1.257 ± 0.039	0.005ThrXaa: 0.005 ± 0.002
Val	8.413ValAla: 8.413 ± 0.09	0.689ValCys: 0.689 ± 0.026	4.056ValAsp: 4.056 ± 0.066	4.457ValGlu: 4.457 ± 0.071	2.963ValPhe: 2.963 ± 0.061	5.426ValGly: 5.426 ± 0.086	1.4ValHis: 1.4 ± 0.033	4.246ValIle: 4.246 ± 0.062	2.237ValLys: 2.237 ± 0.057	7.508ValLeu: 7.508 ± 0.1	2.091ValMet: 2.091 ± 0.049	1.962ValAsn: 1.962 ± 0.047	3.69ValPro: 3.69 ± 0.057	2.395ValGln: 2.395 ± 0.048	4.353ValArg: 4.353 ± 0.064	4.236ValSer: 4.236 ± 0.07	4.452ValThr: 4.452 ± 0.068	5.63ValVal: 5.63 ± 0.082	0.998ValTrp: 0.998 ± 0.029	1.549ValTyr: 1.549 ± 0.04	0.001ValXaa: 0.001 ± 0.001
Trp	1.528TrpAla: 1.528 ± 0.042	0.17TrpCys: 0.17 ± 0.011	0.781TrpAsp: 0.781 ± 0.029	0.647TrpGlu: 0.647 ± 0.026	0.62TrpPhe: 0.62 ± 0.021	0.986TrpGly: 0.986 ± 0.029	0.333TrpHis: 0.333 ± 0.017	0.674TrpIle: 0.674 ± 0.023	0.517TrpLys: 0.517 ± 0.02	1.662TrpLeu: 1.662 ± 0.042	0.416TrpMet: 0.416 ± 0.018	0.43TrpAsn: 0.43 ± 0.018	0.747TrpPro: 0.747 ± 0.028	0.616TrpGln: 0.616 ± 0.026	1.135TrpArg: 1.135 ± 0.034	0.823TrpSer: 0.823 ± 0.031	0.791TrpThr: 0.791 ± 0.024	0.992TrpVal: 0.992 ± 0.034	0.231TrpTrp: 0.231 ± 0.017	0.294TrpTyr: 0.294 ± 0.018	0.002TrpXaa: 0.002 ± 0.001
Tyr	2.45TyrAla: 2.45 ± 0.05	0.279TyrCys: 0.279 ± 0.017	1.67TyrAsp: 1.67 ± 0.039	1.308TyrGlu: 1.308 ± 0.041	0.954TyrPhe: 0.954 ± 0.035	2.031TyrGly: 2.031 ± 0.046	0.566TyrHis: 0.566 ± 0.023	0.908TyrIle: 0.908 ± 0.03	0.659TyrLys: 0.659 ± 0.024	2.325TyrLeu: 2.325 ± 0.047	0.525TyrMet: 0.525 ± 0.019	0.589TyrAsn: 0.589 ± 0.024	1.083TyrPro: 1.083 ± 0.03	0.751TyrGln: 0.751 ± 0.029	1.617TyrArg: 1.617 ± 0.037	1.16TyrSer: 1.16 ± 0.035	1.09TyrThr: 1.09 ± 0.034	1.637TyrVal: 1.637 ± 0.041	0.393TyrTrp: 0.393 ± 0.018	0.608TyrTyr: 0.608 ± 0.025	0.0TyrXaa: 0.0 ± 0.0
Xaa	0.002XaaAla: 0.002 ± 0.001	0.001XaaCys: 0.001 ± 0.001	0.001XaaAsp: 0.001 ± 0.001	0.0XaaGlu: 0.0 ± 0.0	0.004XaaPhe: 0.004 ± 0.002	0.004XaaGly: 0.004 ± 0.002	0.001XaaHis: 0.001 ± 0.001	0.0XaaIle: 0.0 ± 0.0	0.0XaaLys: 0.0 ± 0.0	0.002XaaLeu: 0.002 ± 0.001	0.0XaaMet: 0.0 ± 0.0	0.001XaaAsn: 0.001 ± 0.001	0.003XaaPro: 0.003 ± 0.002	0.001XaaGln: 0.001 ± 0.001	0.004XaaArg: 0.004 ± 0.002	0.003XaaSer: 0.003 ± 0.002	0.004XaaThr: 0.004 ± 0.002	0.002XaaVal: 0.002 ± 0.001	0.0XaaTrp: 0.0 ± 0.0	0.001XaaTyr: 0.001 ± 0.001	1.299XaaXaa: 1.299 ± 0.339

Statistics based on 3603 proteins (1059865 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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