Amino acid dipepetide frequency for Mycobacterium phage SkinnyPete

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
18.659AlaAla: 18.659 ± 2.516
0.718AlaCys: 0.718 ± 0.329
9.114AlaAsp: 9.114 ± 0.822
8.684AlaGlu: 8.684 ± 0.944
3.301AlaPhe: 3.301 ± 0.533
9.689AlaGly: 9.689 ± 1.322
3.086AlaHis: 3.086 ± 1.043
5.024AlaIle: 5.024 ± 0.613
3.66AlaLys: 3.66 ± 0.657
9.832AlaLeu: 9.832 ± 0.851
2.153AlaMet: 2.153 ± 0.359
3.23AlaAsn: 3.23 ± 0.537
6.961AlaPro: 6.961 ± 0.644
5.239AlaGln: 5.239 ± 0.533
8.038AlaArg: 8.038 ± 0.789
5.813AlaSer: 5.813 ± 0.637
7.823AlaThr: 7.823 ± 0.716
6.603AlaVal: 6.603 ± 0.603
2.368AlaTrp: 2.368 ± 0.517
2.799AlaTyr: 2.799 ± 0.447
0.0AlaXaa: 0.0 ± 0.0
Cys
1.938CysAla: 1.938 ± 0.448
0.072CysCys: 0.072 ± 0.072
1.148CysAsp: 1.148 ± 0.375
0.646CysGlu: 0.646 ± 0.272
0.0CysPhe: 0.0 ± 0.0
1.579CysGly: 1.579 ± 0.391
0.144CysHis: 0.144 ± 0.101
0.144CysIle: 0.144 ± 0.103
0.072CysLys: 0.072 ± 0.078
0.502CysLeu: 0.502 ± 0.216
0.072CysMet: 0.072 ± 0.076
0.287CysAsn: 0.287 ± 0.144
1.435CysPro: 1.435 ± 0.375
0.431CysGln: 0.431 ± 0.149
0.933CysArg: 0.933 ± 0.215
0.359CysSer: 0.359 ± 0.148
0.718CysThr: 0.718 ± 0.23
0.574CysVal: 0.574 ± 0.204
0.144CysTrp: 0.144 ± 0.103
0.287CysTyr: 0.287 ± 0.117
0.0CysXaa: 0.0 ± 0.0
Asp
7.751AspAla: 7.751 ± 0.696
1.005AspCys: 1.005 ± 0.303
5.167AspAsp: 5.167 ± 0.78
5.167AspGlu: 5.167 ± 0.651
2.153AspPhe: 2.153 ± 0.318
7.033AspGly: 7.033 ± 0.643
1.435AspHis: 1.435 ± 0.338
2.368AspIle: 2.368 ± 0.373
1.722AspLys: 1.722 ± 0.311
6.1AspLeu: 6.1 ± 0.603
1.435AspMet: 1.435 ± 0.334
1.579AspAsn: 1.579 ± 0.379
4.45AspPro: 4.45 ± 0.684
2.009AspGln: 2.009 ± 0.354
4.162AspArg: 4.162 ± 0.57
3.947AspSer: 3.947 ± 0.69
2.871AspThr: 2.871 ± 0.491
3.158AspVal: 3.158 ± 0.494
0.933AspTrp: 0.933 ± 0.294
1.651AspTyr: 1.651 ± 0.371
0.0AspXaa: 0.0 ± 0.0
Glu
6.818GluAla: 6.818 ± 0.939
0.933GluCys: 0.933 ± 0.285
3.517GluAsp: 3.517 ± 0.577
2.153GluGlu: 2.153 ± 0.417
3.158GluPhe: 3.158 ± 0.529
2.512GluGly: 2.512 ± 0.478
1.22GluHis: 1.22 ± 0.283
3.158GluIle: 3.158 ± 0.464
2.225GluLys: 2.225 ± 0.446
5.454GluLeu: 5.454 ± 0.577
1.794GluMet: 1.794 ± 0.378
1.866GluAsn: 1.866 ± 0.332
2.512GluPro: 2.512 ± 0.371
3.014GluGln: 3.014 ± 0.441
4.808GluArg: 4.808 ± 0.617
2.871GluSer: 2.871 ± 0.54
3.732GluThr: 3.732 ± 0.533
4.306GluVal: 4.306 ± 0.561
1.22GluTrp: 1.22 ± 0.294
1.292GluTyr: 1.292 ± 0.275
0.0GluXaa: 0.0 ± 0.0
Phe
3.588PheAla: 3.588 ± 0.549
0.502PheCys: 0.502 ± 0.233
1.794PheAsp: 1.794 ± 0.527
1.651PheGlu: 1.651 ± 0.297
0.861PhePhe: 0.861 ± 0.321
2.727PheGly: 2.727 ± 0.498
0.861PheHis: 0.861 ± 0.267
1.292PheIle: 1.292 ± 0.321
0.861PheLys: 0.861 ± 0.21
2.225PheLeu: 2.225 ± 0.431
0.215PheMet: 0.215 ± 0.166
0.861PheAsn: 0.861 ± 0.238
1.148PhePro: 1.148 ± 0.302
0.431PheGln: 0.431 ± 0.139
1.722PheArg: 1.722 ± 0.274
1.651PheSer: 1.651 ± 0.309
2.584PheThr: 2.584 ± 0.419
2.44PheVal: 2.44 ± 0.591
0.359PheTrp: 0.359 ± 0.154
0.933PheTyr: 0.933 ± 0.248
0.0PheXaa: 0.0 ± 0.0
Gly
8.325GlyAla: 8.325 ± 1.382
1.077GlyCys: 1.077 ± 0.313
5.311GlyAsp: 5.311 ± 0.615
3.732GlyGlu: 3.732 ± 0.577
2.368GlyPhe: 2.368 ± 0.496
9.545GlyGly: 9.545 ± 1.623
1.22GlyHis: 1.22 ± 0.301
4.952GlyIle: 4.952 ± 0.738
2.225GlyLys: 2.225 ± 0.337
7.033GlyLeu: 7.033 ± 0.699
1.651GlyMet: 1.651 ± 0.329
2.799GlyAsn: 2.799 ± 0.446
4.665GlyPro: 4.665 ± 0.628
3.804GlyGln: 3.804 ± 0.506
5.167GlyArg: 5.167 ± 0.583
6.315GlySer: 6.315 ± 0.817
5.813GlyThr: 5.813 ± 0.649
6.961GlyVal: 6.961 ± 0.797
1.938GlyTrp: 1.938 ± 0.442
2.727GlyTyr: 2.727 ± 0.538
0.0GlyXaa: 0.0 ± 0.0
His
1.507HisAla: 1.507 ± 0.398
0.215HisCys: 0.215 ± 0.136
1.077HisAsp: 1.077 ± 0.25
1.794HisGlu: 1.794 ± 0.396
0.215HisPhe: 0.215 ± 0.125
1.722HisGly: 1.722 ± 0.35
0.789HisHis: 0.789 ± 0.229
0.861HisIle: 0.861 ± 0.184
0.431HisLys: 0.431 ± 0.161
1.579HisLeu: 1.579 ± 0.496
0.287HisMet: 0.287 ± 0.151
0.502HisAsn: 0.502 ± 0.171
1.148HisPro: 1.148 ± 0.293
0.861HisGln: 0.861 ± 0.259
1.938HisArg: 1.938 ± 0.462
1.005HisSer: 1.005 ± 0.378
1.364HisThr: 1.364 ± 0.314
2.655HisVal: 2.655 ± 0.754
0.502HisTrp: 0.502 ± 0.197
0.861HisTyr: 0.861 ± 0.265
0.0HisXaa: 0.0 ± 0.0
Ile
5.598IleAla: 5.598 ± 0.584
0.287IleCys: 0.287 ± 0.129
3.301IleAsp: 3.301 ± 0.431
3.517IleGlu: 3.517 ± 0.46
1.148IlePhe: 1.148 ± 0.315
4.665IleGly: 4.665 ± 0.732
0.861IleHis: 0.861 ± 0.247
1.005IleIle: 1.005 ± 0.254
0.861IleLys: 0.861 ± 0.254
2.44IleLeu: 2.44 ± 0.39
0.287IleMet: 0.287 ± 0.128
1.507IleAsn: 1.507 ± 0.326
2.799IlePro: 2.799 ± 0.42
1.005IleGln: 1.005 ± 0.223
3.301IleArg: 3.301 ± 0.501
2.009IleSer: 2.009 ± 0.407
4.378IleThr: 4.378 ± 0.654
3.23IleVal: 3.23 ± 0.556
0.933IleTrp: 0.933 ± 0.233
1.148IleTyr: 1.148 ± 0.245
0.0IleXaa: 0.0 ± 0.0
Lys
4.737LysAla: 4.737 ± 0.945
0.072LysCys: 0.072 ± 0.08
0.933LysAsp: 0.933 ± 0.247
1.077LysGlu: 1.077 ± 0.283
0.933LysPhe: 0.933 ± 0.24
2.584LysGly: 2.584 ± 0.426
0.287LysHis: 0.287 ± 0.141
1.651LysIle: 1.651 ± 0.295
0.359LysLys: 0.359 ± 0.133
2.225LysLeu: 2.225 ± 0.419
0.718LysMet: 0.718 ± 0.215
0.574LysAsn: 0.574 ± 0.194
2.44LysPro: 2.44 ± 0.458
1.292LysGln: 1.292 ± 0.313
2.368LysArg: 2.368 ± 0.435
1.722LysSer: 1.722 ± 0.376
1.579LysThr: 1.579 ± 0.31
2.44LysVal: 2.44 ± 0.399
0.431LysTrp: 0.431 ± 0.161
0.789LysTyr: 0.789 ± 0.203
0.0LysXaa: 0.0 ± 0.0
Leu
10.55LeuAla: 10.55 ± 0.964
1.005LeuCys: 1.005 ± 0.345
4.952LeuAsp: 4.952 ± 0.559
3.588LeuGlu: 3.588 ± 0.347
2.799LeuPhe: 2.799 ± 0.451
7.392LeuGly: 7.392 ± 0.897
2.009LeuHis: 2.009 ± 0.472
3.23LeuIle: 3.23 ± 0.441
2.942LeuLys: 2.942 ± 0.418
6.818LeuLeu: 6.818 ± 0.782
1.507LeuMet: 1.507 ± 0.362
2.44LeuAsn: 2.44 ± 0.391
4.019LeuPro: 4.019 ± 0.523
2.584LeuGln: 2.584 ± 0.399
5.67LeuArg: 5.67 ± 0.811
4.234LeuSer: 4.234 ± 0.504
4.808LeuThr: 4.808 ± 0.582
5.239LeuVal: 5.239 ± 0.647
1.507LeuTrp: 1.507 ± 0.321
1.22LeuTyr: 1.22 ± 0.264
0.0LeuXaa: 0.0 ± 0.0
Met
3.086MetAla: 3.086 ± 0.461
0.144MetCys: 0.144 ± 0.154
1.22MetAsp: 1.22 ± 0.286
0.718MetGlu: 0.718 ± 0.257
0.861MetPhe: 0.861 ± 0.269
0.718MetGly: 0.718 ± 0.208
0.502MetHis: 0.502 ± 0.166
0.718MetIle: 0.718 ± 0.202
0.502MetLys: 0.502 ± 0.21
1.364MetLeu: 1.364 ± 0.313
0.502MetMet: 0.502 ± 0.172
0.933MetAsn: 0.933 ± 0.276
1.364MetPro: 1.364 ± 0.323
0.502MetGln: 0.502 ± 0.192
1.364MetArg: 1.364 ± 0.328
2.44MetSer: 2.44 ± 0.328
1.651MetThr: 1.651 ± 0.305
0.933MetVal: 0.933 ± 0.283
0.789MetTrp: 0.789 ± 0.271
0.287MetTyr: 0.287 ± 0.116
0.0MetXaa: 0.0 ± 0.0
Asn
3.588AsnAla: 3.588 ± 0.743
0.359AsnCys: 0.359 ± 0.145
1.364AsnAsp: 1.364 ± 0.322
1.148AsnGlu: 1.148 ± 0.241
1.005AsnPhe: 1.005 ± 0.257
3.875AsnGly: 3.875 ± 0.631
0.502AsnHis: 0.502 ± 0.273
1.579AsnIle: 1.579 ± 0.353
0.646AsnLys: 0.646 ± 0.25
2.512AsnLeu: 2.512 ± 0.401
0.359AsnMet: 0.359 ± 0.149
1.005AsnAsn: 1.005 ± 0.219
2.512AsnPro: 2.512 ± 0.433
1.507AsnGln: 1.507 ± 0.299
1.651AsnArg: 1.651 ± 0.326
1.005AsnSer: 1.005 ± 0.248
1.722AsnThr: 1.722 ± 0.321
1.579AsnVal: 1.579 ± 0.273
0.574AsnTrp: 0.574 ± 0.178
0.431AsnTyr: 0.431 ± 0.199
0.0AsnXaa: 0.0 ± 0.0
Pro
7.033ProAla: 7.033 ± 0.805
0.933ProCys: 0.933 ± 0.281
4.306ProAsp: 4.306 ± 0.405
4.665ProGlu: 4.665 ± 0.692
1.794ProPhe: 1.794 ± 0.341
6.387ProGly: 6.387 ± 0.759
0.861ProHis: 0.861 ± 0.276
2.225ProIle: 2.225 ± 0.402
1.292ProLys: 1.292 ± 0.372
4.306ProLeu: 4.306 ± 0.568
1.794ProMet: 1.794 ± 0.44
1.722ProAsn: 1.722 ± 0.376
3.517ProPro: 3.517 ± 0.538
2.009ProGln: 2.009 ± 0.379
2.942ProArg: 2.942 ± 0.571
2.727ProSer: 2.727 ± 0.37
4.45ProThr: 4.45 ± 0.617
4.45ProVal: 4.45 ± 0.44
1.722ProTrp: 1.722 ± 0.377
1.364ProTyr: 1.364 ± 0.436
0.0ProXaa: 0.0 ± 0.0
Gln
5.454GlnAla: 5.454 ± 0.807
0.287GlnCys: 0.287 ± 0.153
1.579GlnAsp: 1.579 ± 0.361
1.507GlnGlu: 1.507 ± 0.34
0.718GlnPhe: 0.718 ± 0.209
1.866GlnGly: 1.866 ± 0.322
1.005GlnHis: 1.005 ± 0.237
2.44GlnIle: 2.44 ± 0.379
1.005GlnLys: 1.005 ± 0.271
4.019GlnLeu: 4.019 ± 0.635
1.148GlnMet: 1.148 ± 0.248
0.574GlnAsn: 0.574 ± 0.221
2.655GlnPro: 2.655 ± 0.488
1.938GlnGln: 1.938 ± 0.395
2.727GlnArg: 2.727 ± 0.499
2.081GlnSer: 2.081 ± 0.367
2.368GlnThr: 2.368 ± 0.391
3.014GlnVal: 3.014 ± 0.484
0.359GlnTrp: 0.359 ± 0.145
0.789GlnTyr: 0.789 ± 0.225
0.0GlnXaa: 0.0 ± 0.0
Arg
6.387ArgAla: 6.387 ± 0.74
0.789ArgCys: 0.789 ± 0.213
4.952ArgAsp: 4.952 ± 0.718
4.378ArgGlu: 4.378 ± 0.657
1.794ArgPhe: 1.794 ± 0.388
4.665ArgGly: 4.665 ± 0.632
1.651ArgHis: 1.651 ± 0.351
3.588ArgIle: 3.588 ± 0.517
2.44ArgLys: 2.44 ± 0.439
5.239ArgLeu: 5.239 ± 0.601
2.655ArgMet: 2.655 ± 0.531
2.009ArgAsn: 2.009 ± 0.314
4.306ArgPro: 4.306 ± 0.617
3.158ArgGln: 3.158 ± 0.637
5.813ArgArg: 5.813 ± 0.881
2.584ArgSer: 2.584 ± 0.397
3.804ArgThr: 3.804 ± 0.546
5.311ArgVal: 5.311 ± 0.692
1.148ArgTrp: 1.148 ± 0.233
2.153ArgTyr: 2.153 ± 0.4
0.0ArgXaa: 0.0 ± 0.0
Ser
6.961SerAla: 6.961 ± 1.084
0.502SerCys: 0.502 ± 0.177
3.23SerAsp: 3.23 ± 0.453
2.297SerGlu: 2.297 ± 0.344
1.148SerPhe: 1.148 ± 0.324
6.244SerGly: 6.244 ± 1.153
0.718SerHis: 0.718 ± 0.2
1.651SerIle: 1.651 ± 0.356
1.866SerLys: 1.866 ± 0.337
3.732SerLeu: 3.732 ± 0.413
1.866SerMet: 1.866 ± 0.362
1.292SerAsn: 1.292 ± 0.332
3.014SerPro: 3.014 ± 0.4
1.794SerGln: 1.794 ± 0.408
3.517SerArg: 3.517 ± 0.534
3.014SerSer: 3.014 ± 0.483
3.588SerThr: 3.588 ± 0.498
3.588SerVal: 3.588 ± 0.586
1.005SerTrp: 1.005 ± 0.213
1.435SerTyr: 1.435 ± 0.284
0.0SerXaa: 0.0 ± 0.0
Thr
8.325ThrAla: 8.325 ± 0.663
0.646ThrCys: 0.646 ± 0.235
4.737ThrAsp: 4.737 ± 0.585
3.23ThrGlu: 3.23 ± 0.466
1.866ThrPhe: 1.866 ± 0.428
6.603ThrGly: 6.603 ± 0.745
1.292ThrHis: 1.292 ± 0.327
3.23ThrIle: 3.23 ± 0.616
2.009ThrLys: 2.009 ± 0.295
4.737ThrLeu: 4.737 ± 0.493
1.077ThrMet: 1.077 ± 0.268
1.651ThrAsn: 1.651 ± 0.297
5.024ThrPro: 5.024 ± 0.628
2.297ThrGln: 2.297 ± 0.336
4.378ThrArg: 4.378 ± 0.544
2.727ThrSer: 2.727 ± 0.551
4.234ThrThr: 4.234 ± 0.645
5.957ThrVal: 5.957 ± 0.709
0.861ThrTrp: 0.861 ± 0.259
1.651ThrTyr: 1.651 ± 0.373
0.0ThrXaa: 0.0 ± 0.0
Val
8.325ValAla: 8.325 ± 0.769
0.933ValCys: 0.933 ± 0.23
4.88ValAsp: 4.88 ± 0.729
6.244ValGlu: 6.244 ± 0.986
1.435ValPhe: 1.435 ± 0.365
4.306ValGly: 4.306 ± 0.604
1.435ValHis: 1.435 ± 0.284
3.517ValIle: 3.517 ± 0.498
3.014ValLys: 3.014 ± 0.571
4.593ValLeu: 4.593 ± 0.609
0.718ValMet: 0.718 ± 0.207
2.871ValAsn: 2.871 ± 0.505
4.593ValPro: 4.593 ± 0.56
2.009ValGln: 2.009 ± 0.316
4.88ValArg: 4.88 ± 0.594
3.732ValSer: 3.732 ± 0.543
6.028ValThr: 6.028 ± 0.645
6.603ValVal: 6.603 ± 0.704
1.22ValTrp: 1.22 ± 0.286
1.077ValTyr: 1.077 ± 0.297
0.0ValXaa: 0.0 ± 0.0
Trp
1.938TrpAla: 1.938 ± 0.337
0.646TrpCys: 0.646 ± 0.218
1.22TrpAsp: 1.22 ± 0.273
0.287TrpGlu: 0.287 ± 0.144
0.574TrpPhe: 0.574 ± 0.256
1.507TrpGly: 1.507 ± 0.381
0.718TrpHis: 0.718 ± 0.194
0.646TrpIle: 0.646 ± 0.202
0.431TrpLys: 0.431 ± 0.161
2.225TrpLeu: 2.225 ± 0.445
0.144TrpMet: 0.144 ± 0.1
0.287TrpAsn: 0.287 ± 0.116
0.861TrpPro: 0.861 ± 0.274
0.933TrpGln: 0.933 ± 0.227
1.579TrpArg: 1.579 ± 0.305
1.292TrpSer: 1.292 ± 0.265
1.22TrpThr: 1.22 ± 0.299
1.364TrpVal: 1.364 ± 0.295
0.718TrpTrp: 0.718 ± 0.253
0.574TrpTyr: 0.574 ± 0.198
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.225TyrAla: 2.225 ± 0.462
0.359TyrCys: 0.359 ± 0.147
2.297TyrAsp: 2.297 ± 0.564
2.081TyrGlu: 2.081 ± 0.341
0.574TyrPhe: 0.574 ± 0.194
2.009TyrGly: 2.009 ± 0.372
0.718TyrHis: 0.718 ± 0.25
1.005TyrIle: 1.005 ± 0.252
0.646TyrLys: 0.646 ± 0.193
1.579TyrLeu: 1.579 ± 0.349
0.144TyrMet: 0.144 ± 0.094
0.933TyrAsn: 0.933 ± 0.265
1.077TyrPro: 1.077 ± 0.256
0.718TyrGln: 0.718 ± 0.223
1.866TyrArg: 1.866 ± 0.324
1.005TyrSer: 1.005 ± 0.194
1.794TyrThr: 1.794 ± 0.322
2.009TyrVal: 2.009 ± 0.533
0.431TyrTrp: 0.431 ± 0.188
1.005TyrTyr: 1.005 ± 0.294
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 67 proteins (13935 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