Amino acid dipepetide frequency for Mycobacterium phage Roary

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
10.796AlaAla: 10.796 ± 1.174
0.793AlaCys: 0.793 ± 0.231
5.977AlaAsp: 5.977 ± 0.606
8.051AlaGlu: 8.051 ± 0.985
3.66AlaPhe: 3.66 ± 0.512
7.563AlaGly: 7.563 ± 0.871
1.586AlaHis: 1.586 ± 0.272
4.026AlaIle: 4.026 ± 0.566
4.88AlaLys: 4.88 ± 0.687
8.783AlaLeu: 8.783 ± 0.835
2.562AlaMet: 2.562 ± 0.425
3.111AlaAsn: 3.111 ± 0.406
3.965AlaPro: 3.965 ± 0.553
3.233AlaGln: 3.233 ± 0.491
5.185AlaArg: 5.185 ± 0.617
4.941AlaSer: 4.941 ± 0.552
5.733AlaThr: 5.733 ± 0.617
4.88AlaVal: 4.88 ± 0.697
1.83AlaTrp: 1.83 ± 0.301
2.135AlaTyr: 2.135 ± 0.401
0.0AlaXaa: 0.0 ± 0.0
Cys
0.61CysAla: 0.61 ± 0.163
0.244CysCys: 0.244 ± 0.128
0.732CysAsp: 0.732 ± 0.221
0.305CysGlu: 0.305 ± 0.15
0.244CysPhe: 0.244 ± 0.132
1.159CysGly: 1.159 ± 0.315
0.366CysHis: 0.366 ± 0.154
0.427CysIle: 0.427 ± 0.196
0.244CysLys: 0.244 ± 0.126
0.61CysLeu: 0.61 ± 0.165
0.122CysMet: 0.122 ± 0.086
0.488CysAsn: 0.488 ± 0.133
0.427CysPro: 0.427 ± 0.174
0.366CysGln: 0.366 ± 0.14
0.427CysArg: 0.427 ± 0.153
0.488CysSer: 0.488 ± 0.16
0.488CysThr: 0.488 ± 0.211
0.671CysVal: 0.671 ± 0.198
0.244CysTrp: 0.244 ± 0.108
0.427CysTyr: 0.427 ± 0.153
0.0CysXaa: 0.0 ± 0.0
Asp
5.916AspAla: 5.916 ± 0.613
1.037AspCys: 1.037 ± 0.227
4.087AspAsp: 4.087 ± 0.526
5.794AspGlu: 5.794 ± 0.535
2.44AspPhe: 2.44 ± 0.37
5.733AspGly: 5.733 ± 0.575
2.135AspHis: 2.135 ± 0.342
3.233AspIle: 3.233 ± 0.462
3.172AspLys: 3.172 ± 0.469
6.648AspLeu: 6.648 ± 0.749
1.83AspMet: 1.83 ± 0.317
1.708AspAsn: 1.708 ± 0.31
4.819AspPro: 4.819 ± 0.656
2.074AspGln: 2.074 ± 0.287
3.172AspArg: 3.172 ± 0.532
3.843AspSer: 3.843 ± 0.437
3.233AspThr: 3.233 ± 0.409
4.026AspVal: 4.026 ± 0.409
1.403AspTrp: 1.403 ± 0.323
3.294AspTyr: 3.294 ± 0.543
0.0AspXaa: 0.0 ± 0.0
Glu
7.502GluAla: 7.502 ± 0.779
0.854GluCys: 0.854 ± 0.214
5.611GluAsp: 5.611 ± 0.733
5.428GluGlu: 5.428 ± 0.613
2.623GluPhe: 2.623 ± 0.352
5.916GluGly: 5.916 ± 0.534
1.22GluHis: 1.22 ± 0.209
5.002GluIle: 5.002 ± 0.543
2.928GluLys: 2.928 ± 0.512
7.075GluLeu: 7.075 ± 0.678
2.135GluMet: 2.135 ± 0.365
1.647GluAsn: 1.647 ± 0.292
3.355GluPro: 3.355 ± 0.503
3.05GluGln: 3.05 ± 0.388
4.636GluArg: 4.636 ± 0.575
3.233GluSer: 3.233 ± 0.378
3.721GluThr: 3.721 ± 0.409
4.88GluVal: 4.88 ± 0.505
1.342GluTrp: 1.342 ± 0.342
2.074GluTyr: 2.074 ± 0.381
0.0GluXaa: 0.0 ± 0.0
Phe
3.294PheAla: 3.294 ± 0.444
0.183PheCys: 0.183 ± 0.112
3.05PheAsp: 3.05 ± 0.409
2.318PheGlu: 2.318 ± 0.342
0.732PhePhe: 0.732 ± 0.189
2.684PheGly: 2.684 ± 0.311
0.549PheHis: 0.549 ± 0.2
1.464PheIle: 1.464 ± 0.29
1.769PheLys: 1.769 ± 0.294
2.928PheLeu: 2.928 ± 0.552
0.732PheMet: 0.732 ± 0.215
1.464PheAsn: 1.464 ± 0.354
1.464PhePro: 1.464 ± 0.323
1.342PheGln: 1.342 ± 0.243
1.525PheArg: 1.525 ± 0.28
1.647PheSer: 1.647 ± 0.233
2.013PheThr: 2.013 ± 0.377
2.806PheVal: 2.806 ± 0.37
0.915PheTrp: 0.915 ± 0.254
1.037PheTyr: 1.037 ± 0.234
0.0PheXaa: 0.0 ± 0.0
Gly
5.916GlyAla: 5.916 ± 1.08
0.854GlyCys: 0.854 ± 0.213
6.099GlyAsp: 6.099 ± 0.647
5.977GlyGlu: 5.977 ± 0.586
2.867GlyPhe: 2.867 ± 0.391
7.868GlyGly: 7.868 ± 1.242
1.891GlyHis: 1.891 ± 0.351
4.392GlyIle: 4.392 ± 0.386
3.66GlyLys: 3.66 ± 0.609
7.441GlyLeu: 7.441 ± 0.706
1.891GlyMet: 1.891 ± 0.3
2.562GlyAsn: 2.562 ± 0.363
3.904GlyPro: 3.904 ± 0.377
2.501GlyGln: 2.501 ± 0.318
4.209GlyArg: 4.209 ± 0.494
3.965GlySer: 3.965 ± 0.53
4.758GlyThr: 4.758 ± 0.639
5.428GlyVal: 5.428 ± 0.576
2.623GlyTrp: 2.623 ± 0.33
2.501GlyTyr: 2.501 ± 0.408
0.0GlyXaa: 0.0 ± 0.0
His
1.037HisAla: 1.037 ± 0.256
0.366HisCys: 0.366 ± 0.127
1.281HisAsp: 1.281 ± 0.269
1.281HisGlu: 1.281 ± 0.242
1.037HisPhe: 1.037 ± 0.233
1.708HisGly: 1.708 ± 0.326
0.427HisHis: 0.427 ± 0.159
1.037HisIle: 1.037 ± 0.246
0.366HisLys: 0.366 ± 0.173
2.013HisLeu: 2.013 ± 0.334
0.244HisMet: 0.244 ± 0.13
0.671HisAsn: 0.671 ± 0.221
1.22HisPro: 1.22 ± 0.251
0.671HisGln: 0.671 ± 0.199
1.098HisArg: 1.098 ± 0.288
0.854HisSer: 0.854 ± 0.185
1.403HisThr: 1.403 ± 0.311
1.342HisVal: 1.342 ± 0.255
0.488HisTrp: 0.488 ± 0.195
0.854HisTyr: 0.854 ± 0.235
0.0HisXaa: 0.0 ± 0.0
Ile
5.063IleAla: 5.063 ± 0.625
0.305IleCys: 0.305 ± 0.114
3.416IleAsp: 3.416 ± 0.443
3.721IleGlu: 3.721 ± 0.455
1.037IlePhe: 1.037 ± 0.27
4.209IleGly: 4.209 ± 0.602
0.793IleHis: 0.793 ± 0.213
1.708IleIle: 1.708 ± 0.347
1.952IleLys: 1.952 ± 0.349
3.965IleLeu: 3.965 ± 0.392
0.915IleMet: 0.915 ± 0.193
1.952IleAsn: 1.952 ± 0.326
3.416IlePro: 3.416 ± 0.356
1.525IleGln: 1.525 ± 0.27
3.721IleArg: 3.721 ± 0.486
2.989IleSer: 2.989 ± 0.355
3.721IleThr: 3.721 ± 0.407
2.928IleVal: 2.928 ± 0.468
0.732IleTrp: 0.732 ± 0.219
1.342IleTyr: 1.342 ± 0.237
0.0IleXaa: 0.0 ± 0.0
Lys
5.733LysAla: 5.733 ± 0.738
0.305LysCys: 0.305 ± 0.125
2.501LysAsp: 2.501 ± 0.382
2.867LysGlu: 2.867 ± 0.457
1.769LysPhe: 1.769 ± 0.296
2.867LysGly: 2.867 ± 0.391
0.976LysHis: 0.976 ± 0.223
1.647LysIle: 1.647 ± 0.314
2.989LysLys: 2.989 ± 0.437
3.843LysLeu: 3.843 ± 0.51
1.403LysMet: 1.403 ± 0.347
1.403LysAsn: 1.403 ± 0.261
3.172LysPro: 3.172 ± 0.46
1.891LysGln: 1.891 ± 0.387
2.379LysArg: 2.379 ± 0.406
2.135LysSer: 2.135 ± 0.357
2.928LysThr: 2.928 ± 0.421
3.66LysVal: 3.66 ± 0.583
0.915LysTrp: 0.915 ± 0.275
1.159LysTyr: 1.159 ± 0.261
0.0LysXaa: 0.0 ± 0.0
Leu
8.356LeuAla: 8.356 ± 0.798
0.671LeuCys: 0.671 ± 0.189
6.343LeuAsp: 6.343 ± 0.612
6.77LeuGlu: 6.77 ± 0.735
1.769LeuPhe: 1.769 ± 0.325
6.709LeuGly: 6.709 ± 0.595
1.342LeuHis: 1.342 ± 0.333
3.477LeuIle: 3.477 ± 0.422
4.148LeuLys: 4.148 ± 0.449
6.587LeuLeu: 6.587 ± 0.558
2.562LeuMet: 2.562 ± 0.366
3.599LeuAsn: 3.599 ± 0.528
3.599LeuPro: 3.599 ± 0.486
2.135LeuGln: 2.135 ± 0.411
5.489LeuArg: 5.489 ± 0.522
5.367LeuSer: 5.367 ± 0.61
5.611LeuThr: 5.611 ± 0.651
5.306LeuVal: 5.306 ± 0.517
1.708LeuTrp: 1.708 ± 0.303
3.05LeuTyr: 3.05 ± 0.408
0.0LeuXaa: 0.0 ± 0.0
Met
2.44MetAla: 2.44 ± 0.336
0.183MetCys: 0.183 ± 0.107
1.281MetAsp: 1.281 ± 0.295
1.952MetGlu: 1.952 ± 0.373
0.549MetPhe: 0.549 ± 0.202
1.22MetGly: 1.22 ± 0.266
0.671MetHis: 0.671 ± 0.164
0.732MetIle: 0.732 ± 0.221
1.403MetLys: 1.403 ± 0.281
1.83MetLeu: 1.83 ± 0.33
0.793MetMet: 0.793 ± 0.203
0.854MetAsn: 0.854 ± 0.205
0.732MetPro: 0.732 ± 0.211
0.915MetGln: 0.915 ± 0.295
1.586MetArg: 1.586 ± 0.31
2.989MetSer: 2.989 ± 0.343
2.989MetThr: 2.989 ± 0.407
1.342MetVal: 1.342 ± 0.294
0.427MetTrp: 0.427 ± 0.156
0.854MetTyr: 0.854 ± 0.215
0.0MetXaa: 0.0 ± 0.0
Asn
2.684AsnAla: 2.684 ± 0.407
0.305AsnCys: 0.305 ± 0.136
2.074AsnAsp: 2.074 ± 0.379
2.013AsnGlu: 2.013 ± 0.314
1.281AsnPhe: 1.281 ± 0.298
3.477AsnGly: 3.477 ± 0.421
0.793AsnHis: 0.793 ± 0.242
2.196AsnIle: 2.196 ± 0.359
1.464AsnLys: 1.464 ± 0.27
1.83AsnLeu: 1.83 ± 0.36
0.61AsnMet: 0.61 ± 0.218
0.793AsnAsn: 0.793 ± 0.211
2.562AsnPro: 2.562 ± 0.43
1.525AsnGln: 1.525 ± 0.321
2.074AsnArg: 2.074 ± 0.362
1.281AsnSer: 1.281 ± 0.317
2.135AsnThr: 2.135 ± 0.314
2.196AsnVal: 2.196 ± 0.399
0.671AsnTrp: 0.671 ± 0.21
1.159AsnTyr: 1.159 ± 0.234
0.0AsnXaa: 0.0 ± 0.0
Pro
4.392ProAla: 4.392 ± 0.601
0.427ProCys: 0.427 ± 0.2
3.904ProAsp: 3.904 ± 0.433
4.209ProGlu: 4.209 ± 0.501
1.464ProPhe: 1.464 ± 0.386
4.27ProGly: 4.27 ± 0.634
0.61ProHis: 0.61 ± 0.208
2.745ProIle: 2.745 ± 0.344
2.318ProLys: 2.318 ± 0.414
3.233ProLeu: 3.233 ± 0.534
1.525ProMet: 1.525 ± 0.347
1.708ProAsn: 1.708 ± 0.364
3.477ProPro: 3.477 ± 0.701
1.952ProGln: 1.952 ± 0.348
1.891ProArg: 1.891 ± 0.376
2.379ProSer: 2.379 ± 0.337
3.721ProThr: 3.721 ± 0.388
4.392ProVal: 4.392 ± 0.477
1.647ProTrp: 1.647 ± 0.453
1.952ProTyr: 1.952 ± 0.352
0.0ProXaa: 0.0 ± 0.0
Gln
4.392GlnAla: 4.392 ± 0.76
0.183GlnCys: 0.183 ± 0.096
1.525GlnAsp: 1.525 ± 0.294
1.708GlnGlu: 1.708 ± 0.414
1.281GlnPhe: 1.281 ± 0.244
2.806GlnGly: 2.806 ± 0.572
0.671GlnHis: 0.671 ± 0.187
1.891GlnIle: 1.891 ± 0.399
1.891GlnLys: 1.891 ± 0.391
3.782GlnLeu: 3.782 ± 0.439
0.732GlnMet: 0.732 ± 0.212
0.976GlnAsn: 0.976 ± 0.273
1.586GlnPro: 1.586 ± 0.403
1.403GlnGln: 1.403 ± 0.298
1.403GlnArg: 1.403 ± 0.314
0.854GlnSer: 0.854 ± 0.239
2.074GlnThr: 2.074 ± 0.371
3.05GlnVal: 3.05 ± 0.404
0.61GlnTrp: 0.61 ± 0.173
1.159GlnTyr: 1.159 ± 0.241
0.0GlnXaa: 0.0 ± 0.0
Arg
4.758ArgAla: 4.758 ± 0.554
0.732ArgCys: 0.732 ± 0.235
3.782ArgAsp: 3.782 ± 0.444
4.27ArgGlu: 4.27 ± 0.615
2.196ArgPhe: 2.196 ± 0.394
4.575ArgGly: 4.575 ± 0.542
1.281ArgHis: 1.281 ± 0.266
3.233ArgIle: 3.233 ± 0.428
2.684ArgLys: 2.684 ± 0.364
4.392ArgLeu: 4.392 ± 0.535
1.891ArgMet: 1.891 ± 0.31
1.83ArgAsn: 1.83 ± 0.309
2.318ArgPro: 2.318 ± 0.426
2.074ArgGln: 2.074 ± 0.373
4.88ArgArg: 4.88 ± 0.735
2.867ArgSer: 2.867 ± 0.365
3.294ArgThr: 3.294 ± 0.485
4.087ArgVal: 4.087 ± 0.427
0.915ArgTrp: 0.915 ± 0.211
1.647ArgTyr: 1.647 ± 0.412
0.0ArgXaa: 0.0 ± 0.0
Ser
4.148SerAla: 4.148 ± 0.53
0.366SerCys: 0.366 ± 0.179
3.965SerAsp: 3.965 ± 0.477
3.904SerGlu: 3.904 ± 0.493
2.318SerPhe: 2.318 ± 0.364
4.514SerGly: 4.514 ± 0.605
0.854SerHis: 0.854 ± 0.203
1.952SerIle: 1.952 ± 0.341
2.867SerLys: 2.867 ± 0.367
5.063SerLeu: 5.063 ± 0.592
1.891SerMet: 1.891 ± 0.344
2.074SerAsn: 2.074 ± 0.365
2.379SerPro: 2.379 ± 0.401
1.647SerGln: 1.647 ± 0.343
3.233SerArg: 3.233 ± 0.526
2.745SerSer: 2.745 ± 0.369
2.379SerThr: 2.379 ± 0.367
3.477SerVal: 3.477 ± 0.511
1.525SerTrp: 1.525 ± 0.282
1.464SerTyr: 1.464 ± 0.286
0.0SerXaa: 0.0 ± 0.0
Thr
6.16ThrAla: 6.16 ± 0.746
0.366ThrCys: 0.366 ± 0.129
4.453ThrAsp: 4.453 ± 0.622
4.758ThrGlu: 4.758 ± 0.432
2.44ThrPhe: 2.44 ± 0.35
5.428ThrGly: 5.428 ± 0.538
0.732ThrHis: 0.732 ± 0.343
2.684ThrIle: 2.684 ± 0.483
2.562ThrLys: 2.562 ± 0.356
5.063ThrLeu: 5.063 ± 0.486
1.281ThrMet: 1.281 ± 0.338
2.135ThrAsn: 2.135 ± 0.392
3.721ThrPro: 3.721 ± 0.444
2.562ThrGln: 2.562 ± 0.384
3.233ThrArg: 3.233 ± 0.413
2.989ThrSer: 2.989 ± 0.45
3.538ThrThr: 3.538 ± 0.502
4.026ThrVal: 4.026 ± 0.434
1.647ThrTrp: 1.647 ± 0.309
1.952ThrTyr: 1.952 ± 0.274
0.0ThrXaa: 0.0 ± 0.0
Val
6.282ValAla: 6.282 ± 0.584
0.671ValCys: 0.671 ± 0.21
4.88ValAsp: 4.88 ± 0.575
5.063ValGlu: 5.063 ± 0.489
2.318ValPhe: 2.318 ± 0.382
4.148ValGly: 4.148 ± 0.46
1.464ValHis: 1.464 ± 0.301
4.392ValIle: 4.392 ± 0.514
3.721ValLys: 3.721 ± 0.384
4.453ValLeu: 4.453 ± 0.501
1.342ValMet: 1.342 ± 0.333
2.013ValAsn: 2.013 ± 0.43
3.66ValPro: 3.66 ± 0.333
1.83ValGln: 1.83 ± 0.304
4.148ValArg: 4.148 ± 0.47
4.331ValSer: 4.331 ± 0.547
4.758ValThr: 4.758 ± 0.379
4.697ValVal: 4.697 ± 0.623
1.525ValTrp: 1.525 ± 0.304
1.83ValTyr: 1.83 ± 0.323
0.0ValXaa: 0.0 ± 0.0
Trp
2.44TrpAla: 2.44 ± 0.399
0.183TrpCys: 0.183 ± 0.108
1.403TrpAsp: 1.403 ± 0.307
1.342TrpGlu: 1.342 ± 0.255
0.915TrpPhe: 0.915 ± 0.222
1.769TrpGly: 1.769 ± 0.349
0.671TrpHis: 0.671 ± 0.232
1.525TrpIle: 1.525 ± 0.337
0.61TrpLys: 0.61 ± 0.171
1.83TrpLeu: 1.83 ± 0.343
0.732TrpMet: 0.732 ± 0.216
0.854TrpAsn: 0.854 ± 0.226
0.732TrpPro: 0.732 ± 0.213
0.732TrpGln: 0.732 ± 0.185
0.976TrpArg: 0.976 ± 0.263
1.525TrpSer: 1.525 ± 0.281
1.281TrpThr: 1.281 ± 0.282
1.891TrpVal: 1.891 ± 0.327
0.305TrpTrp: 0.305 ± 0.142
0.549TrpTyr: 0.549 ± 0.188
0.0TrpXaa: 0.0 ± 0.0
Tyr
1.83TyrAla: 1.83 ± 0.291
0.061TyrCys: 0.061 ± 0.057
3.233TyrAsp: 3.233 ± 0.507
2.501TyrGlu: 2.501 ± 0.412
0.976TyrPhe: 0.976 ± 0.245
2.684TyrGly: 2.684 ± 0.375
0.366TyrHis: 0.366 ± 0.159
1.647TyrIle: 1.647 ± 0.317
0.915TyrLys: 0.915 ± 0.233
3.233TyrLeu: 3.233 ± 0.417
0.488TyrMet: 0.488 ± 0.214
1.281TyrAsn: 1.281 ± 0.26
1.708TyrPro: 1.708 ± 0.299
0.549TyrGln: 0.549 ± 0.132
2.44TyrArg: 2.44 ± 0.376
1.342TyrSer: 1.342 ± 0.263
1.952TyrThr: 1.952 ± 0.336
2.44TyrVal: 2.44 ± 0.47
0.793TyrTrp: 0.793 ± 0.212
0.793TyrTyr: 0.793 ± 0.209
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 100 proteins (16396 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