Amino acid dipepetide frequency for Mycobacterium phage BirdsNest

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
16.681AlaAla: 16.681 ± 1.401
1.106AlaCys: 1.106 ± 0.227
8.23AlaAsp: 8.23 ± 0.725
9.159AlaGlu: 9.159 ± 0.826
2.345AlaPhe: 2.345 ± 0.288
11.15AlaGly: 11.15 ± 0.99
2.345AlaHis: 2.345 ± 0.372
6.106AlaIle: 6.106 ± 0.624
4.159AlaLys: 4.159 ± 0.452
10.619AlaLeu: 10.619 ± 0.849
2.876AlaMet: 2.876 ± 0.332
2.92AlaAsn: 2.92 ± 0.447
6.593AlaPro: 6.593 ± 0.622
3.894AlaGln: 3.894 ± 0.436
9.248AlaArg: 9.248 ± 0.91
5.221AlaSer: 5.221 ± 0.482
8.319AlaThr: 8.319 ± 0.499
8.319AlaVal: 8.319 ± 0.645
2.212AlaTrp: 2.212 ± 0.39
2.301AlaTyr: 2.301 ± 0.306
0.0AlaXaa: 0.0 ± 0.0
Cys
0.796CysAla: 0.796 ± 0.186
0.133CysCys: 0.133 ± 0.075
0.796CysAsp: 0.796 ± 0.201
0.398CysGlu: 0.398 ± 0.133
0.354CysPhe: 0.354 ± 0.136
1.15CysGly: 1.15 ± 0.235
0.221CysHis: 0.221 ± 0.093
0.265CysIle: 0.265 ± 0.107
0.221CysLys: 0.221 ± 0.093
0.664CysLeu: 0.664 ± 0.205
0.044CysMet: 0.044 ± 0.046
0.265CysAsn: 0.265 ± 0.113
0.841CysPro: 0.841 ± 0.227
0.31CysGln: 0.31 ± 0.119
0.885CysArg: 0.885 ± 0.221
0.796CysSer: 0.796 ± 0.232
0.177CysThr: 0.177 ± 0.089
0.796CysVal: 0.796 ± 0.189
0.221CysTrp: 0.221 ± 0.115
0.133CysTyr: 0.133 ± 0.068
0.0CysXaa: 0.0 ± 0.0
Asp
8.053AspAla: 8.053 ± 0.645
0.973AspCys: 0.973 ± 0.255
3.54AspAsp: 3.54 ± 0.577
4.381AspGlu: 4.381 ± 0.458
1.991AspPhe: 1.991 ± 0.264
5.885AspGly: 5.885 ± 0.672
1.372AspHis: 1.372 ± 0.26
2.301AspIle: 2.301 ± 0.304
1.726AspLys: 1.726 ± 0.284
4.381AspLeu: 4.381 ± 0.283
1.372AspMet: 1.372 ± 0.256
1.947AspAsn: 1.947 ± 0.313
5.442AspPro: 5.442 ± 0.474
2.345AspGln: 2.345 ± 0.364
5.575AspArg: 5.575 ± 0.498
2.522AspSer: 2.522 ± 0.384
3.496AspThr: 3.496 ± 0.37
4.779AspVal: 4.779 ± 0.465
1.15AspTrp: 1.15 ± 0.214
1.327AspTyr: 1.327 ± 0.219
0.0AspXaa: 0.0 ± 0.0
Glu
8.053GluAla: 8.053 ± 0.808
0.796GluCys: 0.796 ± 0.178
3.628GluAsp: 3.628 ± 0.564
4.115GluGlu: 4.115 ± 0.51
1.77GluPhe: 1.77 ± 0.22
5.841GluGly: 5.841 ± 0.588
1.726GluHis: 1.726 ± 0.271
3.009GluIle: 3.009 ± 0.42
1.637GluLys: 1.637 ± 0.32
6.991GluLeu: 6.991 ± 0.542
0.531GluMet: 0.531 ± 0.152
1.106GluAsn: 1.106 ± 0.176
3.584GluPro: 3.584 ± 0.512
3.23GluGln: 3.23 ± 0.418
4.425GluArg: 4.425 ± 0.486
1.858GluSer: 1.858 ± 0.242
3.584GluThr: 3.584 ± 0.334
6.062GluVal: 6.062 ± 0.525
1.106GluTrp: 1.106 ± 0.239
1.018GluTyr: 1.018 ± 0.182
0.0GluXaa: 0.0 ± 0.0
Phe
2.92PheAla: 2.92 ± 0.387
0.31PheCys: 0.31 ± 0.124
2.168PheAsp: 2.168 ± 0.369
1.46PheGlu: 1.46 ± 0.286
0.575PhePhe: 0.575 ± 0.14
2.655PheGly: 2.655 ± 0.432
0.575PheHis: 0.575 ± 0.171
1.062PheIle: 1.062 ± 0.241
0.796PheLys: 0.796 ± 0.229
1.549PheLeu: 1.549 ± 0.261
0.31PheMet: 0.31 ± 0.116
0.531PheAsn: 0.531 ± 0.143
1.195PhePro: 1.195 ± 0.236
0.442PheGln: 0.442 ± 0.142
1.549PheArg: 1.549 ± 0.28
1.15PheSer: 1.15 ± 0.197
1.504PheThr: 1.504 ± 0.242
1.814PheVal: 1.814 ± 0.307
0.531PheTrp: 0.531 ± 0.159
0.487PheTyr: 0.487 ± 0.146
0.0PheXaa: 0.0 ± 0.0
Gly
10.177GlyAla: 10.177 ± 1.09
1.018GlyCys: 1.018 ± 0.261
6.239GlyAsp: 6.239 ± 0.59
6.106GlyGlu: 6.106 ± 0.562
1.903GlyPhe: 1.903 ± 0.347
13.363GlyGly: 13.363 ± 2.523
1.46GlyHis: 1.46 ± 0.282
4.513GlyIle: 4.513 ± 0.646
3.805GlyLys: 3.805 ± 0.329
8.319GlyLeu: 8.319 ± 0.686
1.903GlyMet: 1.903 ± 0.28
3.009GlyAsn: 3.009 ± 0.496
4.823GlyPro: 4.823 ± 0.484
3.319GlyGln: 3.319 ± 0.513
6.106GlyArg: 6.106 ± 0.534
5.708GlySer: 5.708 ± 0.589
5.708GlyThr: 5.708 ± 0.56
5.841GlyVal: 5.841 ± 0.503
2.522GlyTrp: 2.522 ± 0.372
2.876GlyTyr: 2.876 ± 0.406
0.0GlyXaa: 0.0 ± 0.0
His
2.168HisAla: 2.168 ± 0.295
0.133HisCys: 0.133 ± 0.116
1.416HisAsp: 1.416 ± 0.325
0.31HisGlu: 0.31 ± 0.117
0.708HisPhe: 0.708 ± 0.167
1.726HisGly: 1.726 ± 0.262
0.442HisHis: 0.442 ± 0.137
1.062HisIle: 1.062 ± 0.236
0.31HisLys: 0.31 ± 0.118
1.46HisLeu: 1.46 ± 0.305
0.354HisMet: 0.354 ± 0.09
0.265HisAsn: 0.265 ± 0.106
1.327HisPro: 1.327 ± 0.284
0.354HisGln: 0.354 ± 0.134
1.947HisArg: 1.947 ± 0.322
0.973HisSer: 0.973 ± 0.199
1.195HisThr: 1.195 ± 0.277
1.15HisVal: 1.15 ± 0.232
0.31HisTrp: 0.31 ± 0.112
0.487HisTyr: 0.487 ± 0.151
0.0HisXaa: 0.0 ± 0.0
Ile
5.885IleAla: 5.885 ± 0.391
0.354IleCys: 0.354 ± 0.126
3.186IleAsp: 3.186 ± 0.292
4.248IleGlu: 4.248 ± 0.429
0.929IlePhe: 0.929 ± 0.207
4.336IleGly: 4.336 ± 0.55
0.841IleHis: 0.841 ± 0.153
2.345IleIle: 2.345 ± 0.31
1.46IleLys: 1.46 ± 0.285
3.097IleLeu: 3.097 ± 0.37
0.708IleMet: 0.708 ± 0.217
1.947IleAsn: 1.947 ± 0.275
2.699IlePro: 2.699 ± 0.297
1.46IleGln: 1.46 ± 0.185
2.655IleArg: 2.655 ± 0.387
2.212IleSer: 2.212 ± 0.334
3.186IleThr: 3.186 ± 0.534
3.274IleVal: 3.274 ± 0.418
0.31IleTrp: 0.31 ± 0.102
0.929IleTyr: 0.929 ± 0.18
0.0IleXaa: 0.0 ± 0.0
Lys
3.938LysAla: 3.938 ± 0.5
0.044LysCys: 0.044 ± 0.05
1.858LysAsp: 1.858 ± 0.351
1.726LysGlu: 1.726 ± 0.264
0.664LysPhe: 0.664 ± 0.191
2.743LysGly: 2.743 ± 0.428
0.752LysHis: 0.752 ± 0.202
1.372LysIle: 1.372 ± 0.185
0.929LysLys: 0.929 ± 0.243
3.009LysLeu: 3.009 ± 0.409
0.398LysMet: 0.398 ± 0.12
0.708LysAsn: 0.708 ± 0.123
1.681LysPro: 1.681 ± 0.302
0.841LysGln: 0.841 ± 0.169
1.681LysArg: 1.681 ± 0.358
1.947LysSer: 1.947 ± 0.213
2.035LysThr: 2.035 ± 0.408
2.832LysVal: 2.832 ± 0.431
0.531LysTrp: 0.531 ± 0.119
0.487LysTyr: 0.487 ± 0.143
0.0LysXaa: 0.0 ± 0.0
Leu
12.522LeuAla: 12.522 ± 0.752
0.531LeuCys: 0.531 ± 0.163
5.752LeuAsp: 5.752 ± 0.712
4.248LeuGlu: 4.248 ± 0.378
1.195LeuPhe: 1.195 ± 0.261
7.566LeuGly: 7.566 ± 0.77
1.239LeuHis: 1.239 ± 0.213
3.717LeuIle: 3.717 ± 0.441
2.168LeuLys: 2.168 ± 0.474
5.929LeuLeu: 5.929 ± 0.579
2.168LeuMet: 2.168 ± 0.324
1.991LeuAsn: 1.991 ± 0.443
5.442LeuPro: 5.442 ± 0.422
1.726LeuGln: 1.726 ± 0.245
5.177LeuArg: 5.177 ± 0.471
3.894LeuSer: 3.894 ± 0.444
6.195LeuThr: 6.195 ± 0.449
5.487LeuVal: 5.487 ± 0.51
1.195LeuTrp: 1.195 ± 0.215
1.814LeuTyr: 1.814 ± 0.263
0.0LeuXaa: 0.0 ± 0.0
Met
3.363MetAla: 3.363 ± 0.434
0.177MetCys: 0.177 ± 0.108
0.752MetAsp: 0.752 ± 0.176
1.106MetGlu: 1.106 ± 0.197
0.619MetPhe: 0.619 ± 0.133
1.681MetGly: 1.681 ± 0.328
0.487MetHis: 0.487 ± 0.148
1.15MetIle: 1.15 ± 0.242
0.487MetLys: 0.487 ± 0.138
0.929MetLeu: 0.929 ± 0.195
0.398MetMet: 0.398 ± 0.12
0.442MetAsn: 0.442 ± 0.126
1.77MetPro: 1.77 ± 0.246
0.265MetGln: 0.265 ± 0.103
1.106MetArg: 1.106 ± 0.257
2.257MetSer: 2.257 ± 0.328
2.611MetThr: 2.611 ± 0.31
0.973MetVal: 0.973 ± 0.175
0.398MetTrp: 0.398 ± 0.161
0.265MetTyr: 0.265 ± 0.108
0.0MetXaa: 0.0 ± 0.0
Asn
3.628AsnAla: 3.628 ± 0.444
0.398AsnCys: 0.398 ± 0.157
1.726AsnAsp: 1.726 ± 0.319
1.504AsnGlu: 1.504 ± 0.3
0.619AsnPhe: 0.619 ± 0.19
2.522AsnGly: 2.522 ± 0.484
0.398AsnHis: 0.398 ± 0.116
0.973AsnIle: 0.973 ± 0.195
0.885AsnLys: 0.885 ± 0.152
2.301AsnLeu: 2.301 ± 0.328
0.442AsnMet: 0.442 ± 0.123
0.619AsnAsn: 0.619 ± 0.173
2.08AsnPro: 2.08 ± 0.319
0.708AsnGln: 0.708 ± 0.201
1.46AsnArg: 1.46 ± 0.263
0.929AsnSer: 0.929 ± 0.207
1.726AsnThr: 1.726 ± 0.269
1.681AsnVal: 1.681 ± 0.286
0.973AsnTrp: 0.973 ± 0.192
0.398AsnTyr: 0.398 ± 0.116
0.0AsnXaa: 0.0 ± 0.0
Pro
6.416ProAla: 6.416 ± 0.651
0.442ProCys: 0.442 ± 0.152
5.354ProAsp: 5.354 ± 0.481
5.354ProGlu: 5.354 ± 0.589
1.77ProPhe: 1.77 ± 0.285
7.522ProGly: 7.522 ± 0.697
1.018ProHis: 1.018 ± 0.255
2.655ProIle: 2.655 ± 0.321
1.637ProLys: 1.637 ± 0.258
3.54ProLeu: 3.54 ± 0.284
1.327ProMet: 1.327 ± 0.244
1.372ProAsn: 1.372 ± 0.204
5.088ProPro: 5.088 ± 0.47
1.681ProGln: 1.681 ± 0.257
2.876ProArg: 2.876 ± 0.343
3.053ProSer: 3.053 ± 0.388
4.159ProThr: 4.159 ± 0.429
5.221ProVal: 5.221 ± 0.524
1.15ProTrp: 1.15 ± 0.268
1.239ProTyr: 1.239 ± 0.235
0.0ProXaa: 0.0 ± 0.0
Gln
4.513GlnAla: 4.513 ± 0.668
0.133GlnCys: 0.133 ± 0.074
1.637GlnAsp: 1.637 ± 0.335
1.549GlnGlu: 1.549 ± 0.277
0.664GlnPhe: 0.664 ± 0.162
2.788GlnGly: 2.788 ± 0.352
0.354GlnHis: 0.354 ± 0.141
1.858GlnIle: 1.858 ± 0.291
0.619GlnLys: 0.619 ± 0.162
3.009GlnLeu: 3.009 ± 0.435
0.973GlnMet: 0.973 ± 0.186
0.487GlnAsn: 0.487 ± 0.145
2.522GlnPro: 2.522 ± 0.427
1.681GlnGln: 1.681 ± 0.509
2.965GlnArg: 2.965 ± 0.412
1.372GlnSer: 1.372 ± 0.323
2.611GlnThr: 2.611 ± 0.38
2.566GlnVal: 2.566 ± 0.326
0.708GlnTrp: 0.708 ± 0.193
0.398GlnTyr: 0.398 ± 0.128
0.0GlnXaa: 0.0 ± 0.0
Arg
8.319ArgAla: 8.319 ± 0.805
0.664ArgCys: 0.664 ± 0.167
3.938ArgAsp: 3.938 ± 0.546
4.69ArgGlu: 4.69 ± 0.441
1.814ArgPhe: 1.814 ± 0.328
5.487ArgGly: 5.487 ± 0.471
1.239ArgHis: 1.239 ± 0.266
2.611ArgIle: 2.611 ± 0.307
2.035ArgLys: 2.035 ± 0.278
6.062ArgLeu: 6.062 ± 0.494
2.168ArgMet: 2.168 ± 0.317
2.168ArgAsn: 2.168 ± 0.345
4.336ArgPro: 4.336 ± 0.579
3.097ArgGln: 3.097 ± 0.47
7.124ArgArg: 7.124 ± 0.823
3.761ArgSer: 3.761 ± 0.467
3.584ArgThr: 3.584 ± 0.375
4.867ArgVal: 4.867 ± 0.449
1.15ArgTrp: 1.15 ± 0.23
1.77ArgTyr: 1.77 ± 0.348
0.0ArgXaa: 0.0 ± 0.0
Ser
5.885SerAla: 5.885 ± 0.498
0.619SerCys: 0.619 ± 0.177
2.611SerAsp: 2.611 ± 0.302
2.124SerGlu: 2.124 ± 0.268
1.239SerPhe: 1.239 ± 0.237
5.664SerGly: 5.664 ± 0.535
0.841SerHis: 0.841 ± 0.212
2.743SerIle: 2.743 ± 0.39
2.212SerLys: 2.212 ± 0.257
3.673SerLeu: 3.673 ± 0.413
1.283SerMet: 1.283 ± 0.256
1.106SerAsn: 1.106 ± 0.209
2.788SerPro: 2.788 ± 0.402
1.947SerGln: 1.947 ± 0.238
3.628SerArg: 3.628 ± 0.501
2.478SerSer: 2.478 ± 0.453
3.584SerThr: 3.584 ± 0.351
3.54SerVal: 3.54 ± 0.488
0.929SerTrp: 0.929 ± 0.193
1.018SerTyr: 1.018 ± 0.218
0.0SerXaa: 0.0 ± 0.0
Thr
7.566ThrAla: 7.566 ± 0.609
0.442ThrCys: 0.442 ± 0.181
4.381ThrAsp: 4.381 ± 0.424
3.805ThrGlu: 3.805 ± 0.468
1.726ThrPhe: 1.726 ± 0.3
7.257ThrGly: 7.257 ± 0.857
0.752ThrHis: 0.752 ± 0.188
2.92ThrIle: 2.92 ± 0.25
1.947ThrLys: 1.947 ± 0.325
5.221ThrLeu: 5.221 ± 0.483
1.77ThrMet: 1.77 ± 0.242
1.416ThrAsn: 1.416 ± 0.221
4.204ThrPro: 4.204 ± 0.479
1.903ThrGln: 1.903 ± 0.417
4.469ThrArg: 4.469 ± 0.442
3.673ThrSer: 3.673 ± 0.395
3.142ThrThr: 3.142 ± 0.425
4.513ThrVal: 4.513 ± 0.388
1.77ThrTrp: 1.77 ± 0.334
1.416ThrTyr: 1.416 ± 0.225
0.0ThrXaa: 0.0 ± 0.0
Val
8.186ValAla: 8.186 ± 0.709
0.752ValCys: 0.752 ± 0.207
4.602ValAsp: 4.602 ± 0.533
5.487ValGlu: 5.487 ± 0.485
1.283ValPhe: 1.283 ± 0.202
6.637ValGly: 6.637 ± 0.575
1.195ValHis: 1.195 ± 0.208
3.717ValIle: 3.717 ± 0.394
2.168ValLys: 2.168 ± 0.323
5.929ValLeu: 5.929 ± 0.434
1.549ValMet: 1.549 ± 0.272
2.522ValAsn: 2.522 ± 0.351
4.248ValPro: 4.248 ± 0.337
2.566ValGln: 2.566 ± 0.403
4.469ValArg: 4.469 ± 0.494
4.115ValSer: 4.115 ± 0.46
4.779ValThr: 4.779 ± 0.548
5.044ValVal: 5.044 ± 0.563
1.504ValTrp: 1.504 ± 0.284
1.681ValTyr: 1.681 ± 0.265
0.0ValXaa: 0.0 ± 0.0
Trp
2.389TrpAla: 2.389 ± 0.393
0.265TrpCys: 0.265 ± 0.117
1.062TrpAsp: 1.062 ± 0.157
1.062TrpGlu: 1.062 ± 0.219
0.575TrpPhe: 0.575 ± 0.21
1.018TrpGly: 1.018 ± 0.254
0.487TrpHis: 0.487 ± 0.142
0.885TrpIle: 0.885 ± 0.164
0.265TrpLys: 0.265 ± 0.115
1.372TrpLeu: 1.372 ± 0.255
0.442TrpMet: 0.442 ± 0.12
0.31TrpAsn: 0.31 ± 0.109
1.239TrpPro: 1.239 ± 0.247
0.796TrpGln: 0.796 ± 0.172
1.726TrpArg: 1.726 ± 0.271
1.283TrpSer: 1.283 ± 0.267
1.726TrpThr: 1.726 ± 0.358
1.814TrpVal: 1.814 ± 0.33
0.487TrpTrp: 0.487 ± 0.145
0.398TrpTyr: 0.398 ± 0.169
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.345TyrAla: 2.345 ± 0.301
0.177TyrCys: 0.177 ± 0.091
1.681TyrAsp: 1.681 ± 0.213
1.239TyrGlu: 1.239 ± 0.204
0.841TyrPhe: 0.841 ± 0.17
1.726TyrGly: 1.726 ± 0.284
0.354TyrHis: 0.354 ± 0.133
0.796TyrIle: 0.796 ± 0.172
0.708TyrLys: 0.708 ± 0.169
1.903TyrLeu: 1.903 ± 0.289
0.177TyrMet: 0.177 ± 0.087
0.841TyrAsn: 0.841 ± 0.186
0.973TyrPro: 0.973 ± 0.212
0.841TyrGln: 0.841 ± 0.212
1.858TyrArg: 1.858 ± 0.331
0.708TyrSer: 0.708 ± 0.17
0.973TyrThr: 0.973 ± 0.224
1.858TyrVal: 1.858 ± 0.294
0.442TyrTrp: 0.442 ± 0.155
0.442TyrTyr: 0.442 ± 0.135
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 105 proteins (22601 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