Amino acid dipepetide frequency for Mycobacterium phage Breeniome

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.

AlaCysAspGluPheGlyHisIleLysLeuMetAsnProGlnArgSerThrValTrpTyrXaa
Ala
10.528AlaAla: 10.528 ± 0.602
0.651AlaCys: 0.651 ± 0.115
6.871AlaAsp: 6.871 ± 0.528
5.905AlaGlu: 5.905 ± 0.473
2.585AlaPhe: 2.585 ± 0.25
8.027AlaGly: 8.027 ± 0.637
1.765AlaHis: 1.765 ± 0.211
4.371AlaIle: 4.371 ± 0.324
4.329AlaLys: 4.329 ± 0.364
8.405AlaLeu: 8.405 ± 0.568
2.69AlaMet: 2.69 ± 0.216
3.362AlaAsn: 3.362 ± 0.294
5.274AlaPro: 5.274 ± 0.457
4.581AlaGln: 4.581 ± 0.373
6.514AlaArg: 6.514 ± 0.428
5.653AlaSer: 5.653 ± 0.431
5.379AlaThr: 5.379 ± 0.418
6.346AlaVal: 6.346 ± 0.448
1.492AlaTrp: 1.492 ± 0.163
2.69AlaTyr: 2.69 ± 0.267
0.0AlaXaa: 0.0 ± 0.0
Cys
0.651CysAla: 0.651 ± 0.135
0.084CysCys: 0.084 ± 0.038
0.567CysAsp: 0.567 ± 0.114
0.483CysGlu: 0.483 ± 0.099
0.357CysPhe: 0.357 ± 0.076
1.009CysGly: 1.009 ± 0.15
0.315CysHis: 0.315 ± 0.076
0.399CysIle: 0.399 ± 0.098
0.189CysLys: 0.189 ± 0.079
0.651CysLeu: 0.651 ± 0.126
0.189CysMet: 0.189 ± 0.062
0.21CysAsn: 0.21 ± 0.063
0.672CysPro: 0.672 ± 0.153
0.378CysGln: 0.378 ± 0.095
0.567CysArg: 0.567 ± 0.124
0.609CysSer: 0.609 ± 0.099
0.399CysThr: 0.399 ± 0.104
0.357CysVal: 0.357 ± 0.079
0.252CysTrp: 0.252 ± 0.078
0.189CysTyr: 0.189 ± 0.066
0.0CysXaa: 0.0 ± 0.0
Asp
6.493AspAla: 6.493 ± 0.341
0.546AspCys: 0.546 ± 0.112
5.085AspAsp: 5.085 ± 0.447
5.674AspGlu: 5.674 ± 0.416
2.501AspPhe: 2.501 ± 0.232
5.232AspGly: 5.232 ± 0.448
1.828AspHis: 1.828 ± 0.178
2.816AspIle: 2.816 ± 0.252
2.459AspLys: 2.459 ± 0.189
5.884AspLeu: 5.884 ± 0.446
1.996AspMet: 1.996 ± 0.207
1.849AspAsn: 1.849 ± 0.188
5.505AspPro: 5.505 ± 0.395
2.669AspGln: 2.669 ± 0.245
4.644AspArg: 4.644 ± 0.363
3.362AspSer: 3.362 ± 0.408
3.404AspThr: 3.404 ± 0.313
4.056AspVal: 4.056 ± 0.381
1.576AspTrp: 1.576 ± 0.201
2.669AspTyr: 2.669 ± 0.227
0.0AspXaa: 0.0 ± 0.0
Glu
6.409GluAla: 6.409 ± 0.417
0.525GluCys: 0.525 ± 0.12
4.959GluAsp: 4.959 ± 0.508
4.287GluGlu: 4.287 ± 0.388
1.744GluPhe: 1.744 ± 0.192
3.908GluGly: 3.908 ± 0.305
1.954GluHis: 1.954 ± 0.244
3.341GluIle: 3.341 ± 0.271
2.459GluLys: 2.459 ± 0.266
5.442GluLeu: 5.442 ± 0.367
1.765GluMet: 1.765 ± 0.173
1.513GluAsn: 1.513 ± 0.186
3.341GluPro: 3.341 ± 0.242
2.837GluGln: 2.837 ± 0.254
4.602GluArg: 4.602 ± 0.368
3.173GluSer: 3.173 ± 0.273
3.698GluThr: 3.698 ± 0.274
4.728GluVal: 4.728 ± 0.372
1.408GluTrp: 1.408 ± 0.163
1.786GluTyr: 1.786 ± 0.202
0.0GluXaa: 0.0 ± 0.0
Phe
2.837PheAla: 2.837 ± 0.218
0.315PheCys: 0.315 ± 0.094
2.711PheAsp: 2.711 ± 0.197
1.996PheGlu: 1.996 ± 0.188
0.693PhePhe: 0.693 ± 0.142
2.459PheGly: 2.459 ± 0.232
0.693PheHis: 0.693 ± 0.136
1.261PheIle: 1.261 ± 0.162
1.135PheLys: 1.135 ± 0.148
2.374PheLeu: 2.374 ± 0.218
0.63PheMet: 0.63 ± 0.13
0.988PheAsn: 0.988 ± 0.163
1.513PhePro: 1.513 ± 0.201
1.345PheGln: 1.345 ± 0.169
2.29PheArg: 2.29 ± 0.203
1.597PheSer: 1.597 ± 0.2
2.143PheThr: 2.143 ± 0.246
2.206PheVal: 2.206 ± 0.22
0.462PheTrp: 0.462 ± 0.11
1.135PheTyr: 1.135 ± 0.157
0.0PheXaa: 0.0 ± 0.0
Gly
6.514GlyAla: 6.514 ± 0.548
0.504GlyCys: 0.504 ± 0.115
5.064GlyAsp: 5.064 ± 0.438
4.665GlyGlu: 4.665 ± 0.277
2.501GlyPhe: 2.501 ± 0.255
8.552GlyGly: 8.552 ± 1.094
2.08GlyHis: 2.08 ± 0.206
3.656GlyIle: 3.656 ± 0.338
3.698GlyLys: 3.698 ± 0.343
6.262GlyLeu: 6.262 ± 0.343
1.891GlyMet: 1.891 ± 0.19
2.69GlyAsn: 2.69 ± 0.281
4.014GlyPro: 4.014 ± 0.421
3.53GlyGln: 3.53 ± 0.298
5.085GlyArg: 5.085 ± 0.342
4.791GlySer: 4.791 ± 0.368
5.505GlyThr: 5.505 ± 0.476
5.295GlyVal: 5.295 ± 0.359
1.912GlyTrp: 1.912 ± 0.158
2.522GlyTyr: 2.522 ± 0.253
0.0GlyXaa: 0.0 ± 0.0
His
2.017HisAla: 2.017 ± 0.227
0.126HisCys: 0.126 ± 0.05
1.492HisAsp: 1.492 ± 0.209
1.702HisGlu: 1.702 ± 0.19
0.82HisPhe: 0.82 ± 0.133
2.038HisGly: 2.038 ± 0.192
1.093HisHis: 1.093 ± 0.191
1.03HisIle: 1.03 ± 0.133
0.693HisLys: 0.693 ± 0.121
1.975HisLeu: 1.975 ± 0.27
0.483HisMet: 0.483 ± 0.109
0.672HisAsn: 0.672 ± 0.109
2.059HisPro: 2.059 ± 0.259
1.009HisGln: 1.009 ± 0.156
1.807HisArg: 1.807 ± 0.259
1.198HisSer: 1.198 ± 0.169
1.576HisThr: 1.576 ± 0.174
1.828HisVal: 1.828 ± 0.208
0.315HisTrp: 0.315 ± 0.087
0.883HisTyr: 0.883 ± 0.14
0.0HisXaa: 0.0 ± 0.0
Ile
4.812IleAla: 4.812 ± 0.337
0.504IleCys: 0.504 ± 0.096
3.068IleAsp: 3.068 ± 0.238
2.774IleGlu: 2.774 ± 0.27
1.114IlePhe: 1.114 ± 0.141
3.299IleGly: 3.299 ± 0.281
0.904IleHis: 0.904 ± 0.14
1.387IleIle: 1.387 ± 0.183
1.45IleLys: 1.45 ± 0.168
2.606IleLeu: 2.606 ± 0.257
0.904IleMet: 0.904 ± 0.135
1.681IleAsn: 1.681 ± 0.182
2.543IlePro: 2.543 ± 0.273
1.681IleGln: 1.681 ± 0.203
3.383IleArg: 3.383 ± 0.286
2.29IleSer: 2.29 ± 0.22
3.32IleThr: 3.32 ± 0.285
3.362IleVal: 3.362 ± 0.278
0.777IleTrp: 0.777 ± 0.123
1.198IleTyr: 1.198 ± 0.174
0.0IleXaa: 0.0 ± 0.0
Lys
4.35LysAla: 4.35 ± 0.364
0.315LysCys: 0.315 ± 0.088
2.164LysAsp: 2.164 ± 0.187
2.059LysGlu: 2.059 ± 0.208
1.387LysPhe: 1.387 ± 0.187
2.711LysGly: 2.711 ± 0.236
0.82LysHis: 0.82 ± 0.126
1.765LysIle: 1.765 ± 0.18
1.807LysLys: 1.807 ± 0.236
3.131LysLeu: 3.131 ± 0.291
1.114LysMet: 1.114 ± 0.177
1.408LysAsn: 1.408 ± 0.158
1.849LysPro: 1.849 ± 0.218
1.261LysGln: 1.261 ± 0.161
2.963LysArg: 2.963 ± 0.264
1.828LysSer: 1.828 ± 0.182
2.248LysThr: 2.248 ± 0.259
3.257LysVal: 3.257 ± 0.275
0.567LysTrp: 0.567 ± 0.109
1.051LysTyr: 1.051 ± 0.133
0.0LysXaa: 0.0 ± 0.0
Leu
8.195LeuAla: 8.195 ± 0.521
0.756LeuCys: 0.756 ± 0.12
6.346LeuAsp: 6.346 ± 0.433
4.056LeuGlu: 4.056 ± 0.347
1.975LeuPhe: 1.975 ± 0.225
5.442LeuGly: 5.442 ± 0.315
1.429LeuHis: 1.429 ± 0.179
3.236LeuIle: 3.236 ± 0.289
3.047LeuLys: 3.047 ± 0.27
5.274LeuLeu: 5.274 ± 0.432
2.29LeuMet: 2.29 ± 0.231
3.299LeuAsn: 3.299 ± 0.283
4.056LeuPro: 4.056 ± 0.269
2.795LeuGln: 2.795 ± 0.223
5.379LeuArg: 5.379 ± 0.413
4.287LeuSer: 4.287 ± 0.314
4.833LeuThr: 4.833 ± 0.373
5.569LeuVal: 5.569 ± 0.42
1.135LeuTrp: 1.135 ± 0.143
2.332LeuTyr: 2.332 ± 0.25
0.0LeuXaa: 0.0 ± 0.0
Met
2.795MetAla: 2.795 ± 0.262
0.147MetCys: 0.147 ± 0.06
1.681MetAsp: 1.681 ± 0.21
1.24MetGlu: 1.24 ± 0.155
0.735MetPhe: 0.735 ± 0.131
2.017MetGly: 2.017 ± 0.224
0.462MetHis: 0.462 ± 0.091
0.988MetIle: 0.988 ± 0.137
1.114MetLys: 1.114 ± 0.142
1.555MetLeu: 1.555 ± 0.182
0.714MetMet: 0.714 ± 0.134
0.883MetAsn: 0.883 ± 0.15
1.492MetPro: 1.492 ± 0.171
1.051MetGln: 1.051 ± 0.137
1.807MetArg: 1.807 ± 0.197
2.185MetSer: 2.185 ± 0.231
2.248MetThr: 2.248 ± 0.233
1.324MetVal: 1.324 ± 0.151
0.42MetTrp: 0.42 ± 0.093
0.462MetTyr: 0.462 ± 0.103
0.0MetXaa: 0.0 ± 0.0
Asn
3.173AsnAla: 3.173 ± 0.256
0.294AsnCys: 0.294 ± 0.09
1.975AsnAsp: 1.975 ± 0.212
1.702AsnGlu: 1.702 ± 0.21
1.156AsnPhe: 1.156 ± 0.146
3.299AsnGly: 3.299 ± 0.288
0.883AsnHis: 0.883 ± 0.149
1.429AsnIle: 1.429 ± 0.177
1.471AsnLys: 1.471 ± 0.175
2.143AsnLeu: 2.143 ± 0.183
0.883AsnMet: 0.883 ± 0.147
1.471AsnAsn: 1.471 ± 0.191
2.858AsnPro: 2.858 ± 0.253
1.303AsnGln: 1.303 ± 0.165
2.648AsnArg: 2.648 ± 0.249
1.576AsnSer: 1.576 ± 0.194
2.038AsnThr: 2.038 ± 0.208
1.933AsnVal: 1.933 ± 0.171
0.756AsnTrp: 0.756 ± 0.127
0.799AsnTyr: 0.799 ± 0.145
0.0AsnXaa: 0.0 ± 0.0
Pro
5.022ProAla: 5.022 ± 0.412
0.399ProCys: 0.399 ± 0.107
5.064ProAsp: 5.064 ± 0.407
4.77ProGlu: 4.77 ± 0.422
1.555ProPhe: 1.555 ± 0.182
5.821ProGly: 5.821 ± 0.527
1.513ProHis: 1.513 ± 0.206
1.954ProIle: 1.954 ± 0.195
1.702ProLys: 1.702 ± 0.181
3.383ProLeu: 3.383 ± 0.253
1.24ProMet: 1.24 ± 0.152
2.29ProAsn: 2.29 ± 0.238
3.467ProPro: 3.467 ± 0.43
2.311ProGln: 2.311 ± 0.252
2.837ProArg: 2.837 ± 0.249
2.942ProSer: 2.942 ± 0.287
3.95ProThr: 3.95 ± 0.377
4.686ProVal: 4.686 ± 0.304
1.219ProTrp: 1.219 ± 0.163
1.576ProTyr: 1.576 ± 0.211
0.0ProXaa: 0.0 ± 0.0
Gln
4.686GlnAla: 4.686 ± 0.392
0.273GlnCys: 0.273 ± 0.071
2.29GlnAsp: 2.29 ± 0.247
2.501GlnGlu: 2.501 ± 0.267
1.639GlnPhe: 1.639 ± 0.164
2.564GlnGly: 2.564 ± 0.259
1.303GlnHis: 1.303 ± 0.183
2.206GlnIle: 2.206 ± 0.18
0.883GlnLys: 0.883 ± 0.144
3.593GlnLeu: 3.593 ± 0.256
1.303GlnMet: 1.303 ± 0.165
1.429GlnAsn: 1.429 ± 0.168
1.891GlnPro: 1.891 ± 0.195
1.87GlnGln: 1.87 ± 0.211
3.53GlnArg: 3.53 ± 0.259
2.017GlnSer: 2.017 ± 0.211
2.417GlnThr: 2.417 ± 0.248
2.921GlnVal: 2.921 ± 0.26
0.651GlnTrp: 0.651 ± 0.102
1.177GlnTyr: 1.177 ± 0.161
0.0GlnXaa: 0.0 ± 0.0
Arg
6.115ArgAla: 6.115 ± 0.439
0.714ArgCys: 0.714 ± 0.135
3.993ArgAsp: 3.993 ± 0.308
5.59ArgGlu: 5.59 ± 0.478
2.396ArgPhe: 2.396 ± 0.271
4.413ArgGly: 4.413 ± 0.304
1.849ArgHis: 1.849 ± 0.2
2.921ArgIle: 2.921 ± 0.263
3.74ArgLys: 3.74 ± 0.327
5.043ArgLeu: 5.043 ± 0.393
1.828ArgMet: 1.828 ± 0.218
2.227ArgAsn: 2.227 ± 0.205
2.984ArgPro: 2.984 ± 0.275
3.32ArgGln: 3.32 ± 0.257
5.232ArgArg: 5.232 ± 0.455
3.635ArgSer: 3.635 ± 0.307
3.972ArgThr: 3.972 ± 0.287
5.232ArgVal: 5.232 ± 0.304
1.324ArgTrp: 1.324 ± 0.172
2.269ArgTyr: 2.269 ± 0.241
0.0ArgXaa: 0.0 ± 0.0
Ser
4.833SerAla: 4.833 ± 0.389
0.483SerCys: 0.483 ± 0.113
3.887SerAsp: 3.887 ± 0.361
2.9SerGlu: 2.9 ± 0.248
1.786SerPhe: 1.786 ± 0.196
5.19SerGly: 5.19 ± 0.385
0.967SerHis: 0.967 ± 0.154
2.311SerIle: 2.311 ± 0.254
2.08SerLys: 2.08 ± 0.197
4.371SerLeu: 4.371 ± 0.3
1.408SerMet: 1.408 ± 0.138
1.576SerAsn: 1.576 ± 0.148
3.047SerPro: 3.047 ± 0.263
2.122SerGln: 2.122 ± 0.206
3.446SerArg: 3.446 ± 0.214
3.677SerSer: 3.677 ± 0.385
4.035SerThr: 4.035 ± 0.275
3.845SerVal: 3.845 ± 0.315
1.219SerTrp: 1.219 ± 0.157
1.744SerTyr: 1.744 ± 0.174
0.0SerXaa: 0.0 ± 0.0
Thr
5.821ThrAla: 5.821 ± 0.455
0.651ThrCys: 0.651 ± 0.139
4.308ThrAsp: 4.308 ± 0.302
3.929ThrGlu: 3.929 ± 0.305
2.29ThrPhe: 2.29 ± 0.252
5.905ThrGly: 5.905 ± 0.387
1.933ThrHis: 1.933 ± 0.22
3.11ThrIle: 3.11 ± 0.301
2.164ThrLys: 2.164 ± 0.2
4.476ThrLeu: 4.476 ± 0.279
1.366ThrMet: 1.366 ± 0.169
2.374ThrAsn: 2.374 ± 0.273
4.455ThrPro: 4.455 ± 0.416
2.164ThrGln: 2.164 ± 0.22
3.257ThrArg: 3.257 ± 0.236
3.866ThrSer: 3.866 ± 0.328
4.455ThrThr: 4.455 ± 0.387
4.833ThrVal: 4.833 ± 0.41
1.303ThrTrp: 1.303 ± 0.173
1.996ThrTyr: 1.996 ± 0.229
0.0ThrXaa: 0.0 ± 0.0
Val
7.586ValAla: 7.586 ± 0.425
0.672ValCys: 0.672 ± 0.138
5.043ValAsp: 5.043 ± 0.294
4.959ValGlu: 4.959 ± 0.307
2.017ValPhe: 2.017 ± 0.228
5.232ValGly: 5.232 ± 0.373
1.786ValHis: 1.786 ± 0.177
3.089ValIle: 3.089 ± 0.265
2.206ValLys: 2.206 ± 0.249
5.337ValLeu: 5.337 ± 0.422
1.765ValMet: 1.765 ± 0.152
2.206ValAsn: 2.206 ± 0.227
4.371ValPro: 4.371 ± 0.254
2.732ValGln: 2.732 ± 0.291
4.497ValArg: 4.497 ± 0.327
3.761ValSer: 3.761 ± 0.261
5.211ValThr: 5.211 ± 0.363
5.821ValVal: 5.821 ± 0.461
1.114ValTrp: 1.114 ± 0.131
1.933ValTyr: 1.933 ± 0.238
0.0ValXaa: 0.0 ± 0.0
Trp
1.492TrpAla: 1.492 ± 0.166
0.252TrpCys: 0.252 ± 0.075
1.387TrpAsp: 1.387 ± 0.17
1.114TrpGlu: 1.114 ± 0.156
0.504TrpPhe: 0.504 ± 0.134
1.681TrpGly: 1.681 ± 0.214
0.378TrpHis: 0.378 ± 0.078
0.693TrpIle: 0.693 ± 0.13
0.693TrpLys: 0.693 ± 0.123
1.198TrpLeu: 1.198 ± 0.151
0.399TrpMet: 0.399 ± 0.101
0.588TrpAsn: 0.588 ± 0.128
0.862TrpPro: 0.862 ± 0.133
0.862TrpGln: 0.862 ± 0.131
1.66TrpArg: 1.66 ± 0.183
1.177TrpSer: 1.177 ± 0.132
1.534TrpThr: 1.534 ± 0.18
1.387TrpVal: 1.387 ± 0.197
0.609TrpTrp: 0.609 ± 0.115
0.567TrpTyr: 0.567 ± 0.092
0.0TrpXaa: 0.0 ± 0.0
Tyr
3.089TyrAla: 3.089 ± 0.254
0.315TyrCys: 0.315 ± 0.071
2.29TyrAsp: 2.29 ± 0.245
1.576TyrGlu: 1.576 ± 0.211
1.03TyrPhe: 1.03 ± 0.156
1.954TyrGly: 1.954 ± 0.251
0.862TyrHis: 0.862 ± 0.157
1.093TyrIle: 1.093 ± 0.125
0.735TyrLys: 0.735 ± 0.137
2.627TyrLeu: 2.627 ± 0.225
0.441TyrMet: 0.441 ± 0.079
1.072TyrAsn: 1.072 ± 0.17
1.45TyrPro: 1.45 ± 0.168
1.324TyrGln: 1.324 ± 0.171
2.648TyrArg: 2.648 ± 0.259
1.303TyrSer: 1.303 ± 0.114
2.29TyrThr: 2.29 ± 0.235
2.353TyrVal: 2.353 ± 0.236
0.525TyrTrp: 0.525 ± 0.113
1.051TyrTyr: 1.051 ± 0.167
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 236 proteins (47590 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
See this proteome in: uniprot_link
Proteome-pI is available under Creative Commons Attribution-NoDerivs license, for more details see here

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