Amino acid dipepetide frequency for Bacillus phage Silence

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
7.671AlaAla: 7.671 ± 1.579
0.4AlaCys: 0.4 ± 0.154
3.916AlaAsp: 3.916 ± 0.628
4.795AlaGlu: 4.795 ± 0.531
4.075AlaPhe: 4.075 ± 0.624
6.952AlaGly: 6.952 ± 1.038
0.479AlaHis: 0.479 ± 0.183
4.954AlaIle: 4.954 ± 0.921
4.635AlaLys: 4.635 ± 0.624
7.512AlaLeu: 7.512 ± 1.254
2.397AlaMet: 2.397 ± 0.46
3.676AlaAsn: 3.676 ± 0.522
1.598AlaPro: 1.598 ± 0.36
3.117AlaGln: 3.117 ± 0.763
2.237AlaArg: 2.237 ± 0.401
3.356AlaSer: 3.356 ± 0.52
3.596AlaThr: 3.596 ± 0.584
4.475AlaVal: 4.475 ± 0.734
0.799AlaTrp: 0.799 ± 0.239
2.797AlaTyr: 2.797 ± 0.412
0.0AlaXaa: 0.0 ± 0.0
Cys
0.639CysAla: 0.639 ± 0.201
0.24CysCys: 0.24 ± 0.157
0.799CysAsp: 0.799 ± 0.262
0.799CysGlu: 0.799 ± 0.257
0.639CysPhe: 0.639 ± 0.224
0.799CysGly: 0.799 ± 0.314
0.0CysHis: 0.0 ± 0.0
0.479CysIle: 0.479 ± 0.179
0.879CysLys: 0.879 ± 0.236
0.32CysLeu: 0.32 ± 0.176
0.32CysMet: 0.32 ± 0.156
0.32CysAsn: 0.32 ± 0.167
0.24CysPro: 0.24 ± 0.149
0.4CysGln: 0.4 ± 0.152
0.719CysArg: 0.719 ± 0.228
0.24CysSer: 0.24 ± 0.165
0.4CysThr: 0.4 ± 0.156
0.24CysVal: 0.24 ± 0.144
0.08CysTrp: 0.08 ± 0.072
0.16CysTyr: 0.16 ± 0.177
0.0CysXaa: 0.0 ± 0.0
Asp
4.715AspAla: 4.715 ± 0.661
0.4AspCys: 0.4 ± 0.166
4.315AspAsp: 4.315 ± 0.646
4.395AspGlu: 4.395 ± 0.574
2.717AspPhe: 2.717 ± 0.432
5.354AspGly: 5.354 ± 0.664
0.479AspHis: 0.479 ± 0.196
3.836AspIle: 3.836 ± 0.648
4.235AspLys: 4.235 ± 0.557
5.274AspLeu: 5.274 ± 0.679
1.758AspMet: 1.758 ± 0.394
3.436AspAsn: 3.436 ± 0.475
1.838AspPro: 1.838 ± 0.455
0.959AspGln: 0.959 ± 0.374
2.237AspArg: 2.237 ± 0.406
3.756AspSer: 3.756 ± 0.49
2.637AspThr: 2.637 ± 0.48
3.516AspVal: 3.516 ± 0.73
0.479AspTrp: 0.479 ± 0.198
2.237AspTyr: 2.237 ± 0.35
0.0AspXaa: 0.0 ± 0.0
Glu
4.395GluAla: 4.395 ± 0.68
0.959GluCys: 0.959 ± 0.29
3.836GluAsp: 3.836 ± 0.744
5.274GluGlu: 5.274 ± 0.896
2.637GluPhe: 2.637 ± 0.369
4.395GluGly: 4.395 ± 0.512
1.438GluHis: 1.438 ± 0.347
5.754GluIle: 5.754 ± 0.654
5.833GluLys: 5.833 ± 1.032
5.833GluLeu: 5.833 ± 0.836
3.117GluMet: 3.117 ± 0.567
3.996GluAsn: 3.996 ± 0.598
2.557GluPro: 2.557 ± 0.763
2.717GluGln: 2.717 ± 0.431
2.957GluArg: 2.957 ± 0.6
2.877GluSer: 2.877 ± 0.479
4.235GluThr: 4.235 ± 0.538
3.756GluVal: 3.756 ± 0.602
0.639GluTrp: 0.639 ± 0.229
1.998GluTyr: 1.998 ± 0.365
0.0GluXaa: 0.0 ± 0.0
Phe
2.317PheAla: 2.317 ± 0.589
0.4PheCys: 0.4 ± 0.162
2.797PheAsp: 2.797 ± 0.499
3.196PheGlu: 3.196 ± 0.463
2.158PhePhe: 2.158 ± 0.437
1.918PheGly: 1.918 ± 0.362
0.479PheHis: 0.479 ± 0.192
2.477PheIle: 2.477 ± 0.468
4.555PheLys: 4.555 ± 0.549
3.916PheLeu: 3.916 ± 0.459
1.358PheMet: 1.358 ± 0.351
2.717PheAsn: 2.717 ± 0.357
0.879PhePro: 0.879 ± 0.231
1.119PheGln: 1.119 ± 0.232
1.678PheArg: 1.678 ± 0.314
2.637PheSer: 2.637 ± 0.408
2.477PheThr: 2.477 ± 0.348
2.237PheVal: 2.237 ± 0.333
0.479PheTrp: 0.479 ± 0.194
2.078PheTyr: 2.078 ± 0.445
0.0PheXaa: 0.0 ± 0.0
Gly
4.954GlyAla: 4.954 ± 0.894
0.639GlyCys: 0.639 ± 0.211
3.836GlyAsp: 3.836 ± 0.539
5.034GlyGlu: 5.034 ± 0.708
3.756GlyPhe: 3.756 ± 0.603
5.434GlyGly: 5.434 ± 0.687
1.119GlyHis: 1.119 ± 0.315
5.274GlyIle: 5.274 ± 0.905
4.395GlyLys: 4.395 ± 0.645
7.192GlyLeu: 7.192 ± 0.735
2.317GlyMet: 2.317 ± 0.379
3.996GlyAsn: 3.996 ± 0.777
1.279GlyPro: 1.279 ± 0.283
2.397GlyGln: 2.397 ± 0.316
3.356GlyArg: 3.356 ± 0.431
3.436GlySer: 3.436 ± 0.615
4.315GlyThr: 4.315 ± 0.886
4.635GlyVal: 4.635 ± 0.615
0.959GlyTrp: 0.959 ± 0.289
3.596GlyTyr: 3.596 ± 0.725
0.0GlyXaa: 0.0 ± 0.0
His
0.959HisAla: 0.959 ± 0.28
0.16HisCys: 0.16 ± 0.109
0.959HisAsp: 0.959 ± 0.26
1.438HisGlu: 1.438 ± 0.372
0.639HisPhe: 0.639 ± 0.235
0.879HisGly: 0.879 ± 0.29
0.16HisHis: 0.16 ± 0.105
1.199HisIle: 1.199 ± 0.313
1.518HisLys: 1.518 ± 0.313
1.518HisLeu: 1.518 ± 0.41
0.559HisMet: 0.559 ± 0.221
1.119HisAsn: 1.119 ± 0.364
0.479HisPro: 0.479 ± 0.158
0.16HisGln: 0.16 ± 0.118
1.039HisArg: 1.039 ± 0.288
0.799HisSer: 0.799 ± 0.231
0.559HisThr: 0.559 ± 0.173
0.959HisVal: 0.959 ± 0.24
0.24HisTrp: 0.24 ± 0.122
0.479HisTyr: 0.479 ± 0.169
0.0HisXaa: 0.0 ± 0.0
Ile
5.833IleAla: 5.833 ± 1.043
0.719IleCys: 0.719 ± 0.187
4.235IleAsp: 4.235 ± 0.674
5.194IleGlu: 5.194 ± 0.598
2.078IlePhe: 2.078 ± 0.436
5.194IleGly: 5.194 ± 0.713
1.518IleHis: 1.518 ± 0.329
5.354IleIle: 5.354 ± 0.924
5.514IleLys: 5.514 ± 0.682
4.235IleLeu: 4.235 ± 0.517
1.838IleMet: 1.838 ± 0.42
4.635IleAsn: 4.635 ± 0.536
1.998IlePro: 1.998 ± 0.419
4.155IleGln: 4.155 ± 0.896
2.877IleArg: 2.877 ± 0.592
4.155IleSer: 4.155 ± 0.64
4.315IleThr: 4.315 ± 0.722
4.635IleVal: 4.635 ± 0.621
0.879IleTrp: 0.879 ± 0.231
1.918IleTyr: 1.918 ± 0.352
0.0IleXaa: 0.0 ± 0.0
Lys
6.553LysAla: 6.553 ± 0.965
0.24LysCys: 0.24 ± 0.141
4.715LysAsp: 4.715 ± 0.686
6.073LysGlu: 6.073 ± 0.871
2.397LysPhe: 2.397 ± 0.4
6.153LysGly: 6.153 ± 0.472
1.598LysHis: 1.598 ± 0.334
5.434LysIle: 5.434 ± 0.81
8.71LysLys: 8.71 ± 1.279
6.153LysLeu: 6.153 ± 0.871
3.996LysMet: 3.996 ± 0.573
4.875LysAsn: 4.875 ± 0.672
3.276LysPro: 3.276 ± 0.889
3.596LysGln: 3.596 ± 0.623
4.635LysArg: 4.635 ± 0.573
4.315LysSer: 4.315 ± 0.533
4.555LysThr: 4.555 ± 0.614
5.354LysVal: 5.354 ± 0.617
1.199LysTrp: 1.199 ± 0.32
2.557LysTyr: 2.557 ± 0.455
0.0LysXaa: 0.0 ± 0.0
Leu
3.916LeuAla: 3.916 ± 0.613
0.32LeuCys: 0.32 ± 0.174
5.434LeuAsp: 5.434 ± 0.742
6.792LeuGlu: 6.792 ± 0.846
1.998LeuPhe: 1.998 ± 0.412
5.034LeuGly: 5.034 ± 0.678
1.518LeuHis: 1.518 ± 0.346
5.674LeuIle: 5.674 ± 1.021
9.509LeuLys: 9.509 ± 1.209
6.233LeuLeu: 6.233 ± 0.731
2.637LeuMet: 2.637 ± 0.538
4.315LeuAsn: 4.315 ± 0.552
2.397LeuPro: 2.397 ± 0.445
4.235LeuGln: 4.235 ± 0.677
2.637LeuArg: 2.637 ± 0.411
5.354LeuSer: 5.354 ± 0.629
5.434LeuThr: 5.434 ± 0.605
5.674LeuVal: 5.674 ± 0.898
1.438LeuTrp: 1.438 ± 0.372
2.637LeuTyr: 2.637 ± 0.439
0.0LeuXaa: 0.0 ± 0.0
Met
2.397MetAla: 2.397 ± 0.532
0.16MetCys: 0.16 ± 0.109
1.838MetAsp: 1.838 ± 0.345
2.477MetGlu: 2.477 ± 0.525
1.438MetPhe: 1.438 ± 0.279
1.758MetGly: 1.758 ± 0.405
0.4MetHis: 0.4 ± 0.156
1.918MetIle: 1.918 ± 0.335
3.117MetLys: 3.117 ± 0.474
1.998MetLeu: 1.998 ± 0.375
0.639MetMet: 0.639 ± 0.217
1.358MetAsn: 1.358 ± 0.337
1.358MetPro: 1.358 ± 0.363
1.598MetGln: 1.598 ± 0.541
2.158MetArg: 2.158 ± 0.401
2.237MetSer: 2.237 ± 0.373
1.598MetThr: 1.598 ± 0.373
1.678MetVal: 1.678 ± 0.437
0.24MetTrp: 0.24 ± 0.145
1.039MetTyr: 1.039 ± 0.251
0.0MetXaa: 0.0 ± 0.0
Asn
5.274AsnAla: 5.274 ± 0.923
0.879AsnCys: 0.879 ± 0.315
3.356AsnAsp: 3.356 ± 0.409
3.436AsnGlu: 3.436 ± 0.514
2.078AsnPhe: 2.078 ± 0.427
4.795AsnGly: 4.795 ± 0.5
1.039AsnHis: 1.039 ± 0.312
3.916AsnIle: 3.916 ± 0.661
4.635AsnLys: 4.635 ± 0.699
4.395AsnLeu: 4.395 ± 0.491
1.918AsnMet: 1.918 ± 0.301
3.276AsnAsn: 3.276 ± 0.552
1.838AsnPro: 1.838 ± 0.349
1.039AsnGln: 1.039 ± 0.24
2.797AsnArg: 2.797 ± 0.467
3.516AsnSer: 3.516 ± 0.586
3.356AsnThr: 3.356 ± 0.587
3.516AsnVal: 3.516 ± 0.598
0.559AsnTrp: 0.559 ± 0.189
1.918AsnTyr: 1.918 ± 0.35
0.0AsnXaa: 0.0 ± 0.0
Pro
1.998ProAla: 1.998 ± 0.494
0.32ProCys: 0.32 ± 0.189
2.158ProAsp: 2.158 ± 0.438
2.158ProGlu: 2.158 ± 0.457
2.158ProPhe: 2.158 ± 0.436
1.678ProGly: 1.678 ± 0.407
0.559ProHis: 0.559 ± 0.238
1.918ProIle: 1.918 ± 0.458
1.998ProLys: 1.998 ± 0.551
3.356ProLeu: 3.356 ± 0.517
1.358ProMet: 1.358 ± 0.369
1.358ProAsn: 1.358 ± 0.29
0.559ProPro: 0.559 ± 0.236
0.959ProGln: 0.959 ± 0.348
0.959ProArg: 0.959 ± 0.338
1.838ProSer: 1.838 ± 0.409
1.838ProThr: 1.838 ± 0.387
2.397ProVal: 2.397 ± 0.368
0.24ProTrp: 0.24 ± 0.129
0.639ProTyr: 0.639 ± 0.256
0.0ProXaa: 0.0 ± 0.0
Gln
3.836GlnAla: 3.836 ± 0.913
0.4GlnCys: 0.4 ± 0.16
1.518GlnAsp: 1.518 ± 0.338
1.199GlnGlu: 1.199 ± 0.26
1.598GlnPhe: 1.598 ± 0.353
2.158GlnGly: 2.158 ± 0.545
0.639GlnHis: 0.639 ± 0.204
3.996GlnIle: 3.996 ± 0.781
2.957GlnLys: 2.957 ± 0.514
3.836GlnLeu: 3.836 ± 0.773
1.199GlnMet: 1.199 ± 0.441
2.877GlnAsn: 2.877 ± 0.474
0.959GlnPro: 0.959 ± 0.238
1.598GlnGln: 1.598 ± 0.417
1.918GlnArg: 1.918 ± 0.441
1.598GlnSer: 1.598 ± 0.429
1.758GlnThr: 1.758 ± 0.413
1.678GlnVal: 1.678 ± 0.376
0.16GlnTrp: 0.16 ± 0.095
0.799GlnTyr: 0.799 ± 0.257
0.0GlnXaa: 0.0 ± 0.0
Arg
2.877ArgAla: 2.877 ± 0.546
0.799ArgCys: 0.799 ± 0.291
2.237ArgAsp: 2.237 ± 0.401
3.117ArgGlu: 3.117 ± 0.457
1.678ArgPhe: 1.678 ± 0.43
2.957ArgGly: 2.957 ± 0.514
0.4ArgHis: 0.4 ± 0.158
2.717ArgIle: 2.717 ± 0.384
4.555ArgLys: 4.555 ± 0.643
3.196ArgLeu: 3.196 ± 0.558
0.879ArgMet: 0.879 ± 0.288
2.237ArgAsn: 2.237 ± 0.38
1.678ArgPro: 1.678 ± 0.363
1.598ArgGln: 1.598 ± 0.433
1.358ArgArg: 1.358 ± 0.353
2.078ArgSer: 2.078 ± 0.446
1.918ArgThr: 1.918 ± 0.329
3.037ArgVal: 3.037 ± 0.506
0.719ArgTrp: 0.719 ± 0.187
2.477ArgTyr: 2.477 ± 0.399
0.0ArgXaa: 0.0 ± 0.0
Ser
3.436SerAla: 3.436 ± 0.575
0.32SerCys: 0.32 ± 0.158
3.276SerAsp: 3.276 ± 0.484
3.276SerGlu: 3.276 ± 0.501
2.557SerPhe: 2.557 ± 0.596
4.635SerGly: 4.635 ± 0.731
0.959SerHis: 0.959 ± 0.296
3.836SerIle: 3.836 ± 0.594
4.795SerLys: 4.795 ± 0.66
4.395SerLeu: 4.395 ± 0.634
1.039SerMet: 1.039 ± 0.359
3.596SerAsn: 3.596 ± 0.531
1.678SerPro: 1.678 ± 0.391
1.678SerGln: 1.678 ± 0.302
2.717SerArg: 2.717 ± 0.428
3.516SerSer: 3.516 ± 0.995
3.596SerThr: 3.596 ± 0.504
2.957SerVal: 2.957 ± 0.42
0.639SerTrp: 0.639 ± 0.244
1.358SerTyr: 1.358 ± 0.326
0.0SerXaa: 0.0 ± 0.0
Thr
4.954ThrAla: 4.954 ± 0.785
0.4ThrCys: 0.4 ± 0.188
2.317ThrAsp: 2.317 ± 0.364
2.317ThrGlu: 2.317 ± 0.391
3.276ThrPhe: 3.276 ± 0.431
5.034ThrGly: 5.034 ± 0.782
1.039ThrHis: 1.039 ± 0.272
4.555ThrIle: 4.555 ± 0.669
4.795ThrLys: 4.795 ± 0.663
5.674ThrLeu: 5.674 ± 0.614
1.039ThrMet: 1.039 ± 0.273
3.836ThrAsn: 3.836 ± 0.724
1.998ThrPro: 1.998 ± 0.383
2.078ThrGln: 2.078 ± 0.45
1.838ThrArg: 1.838 ± 0.34
2.637ThrSer: 2.637 ± 0.503
4.315ThrThr: 4.315 ± 0.613
3.836ThrVal: 3.836 ± 0.422
1.039ThrTrp: 1.039 ± 0.272
1.678ThrTyr: 1.678 ± 0.361
0.0ThrXaa: 0.0 ± 0.0
Val
3.356ValAla: 3.356 ± 0.68
0.559ValCys: 0.559 ± 0.19
3.756ValAsp: 3.756 ± 0.534
4.954ValGlu: 4.954 ± 0.679
2.557ValPhe: 2.557 ± 0.359
3.756ValGly: 3.756 ± 0.584
1.279ValHis: 1.279 ± 0.331
4.635ValIle: 4.635 ± 0.579
5.434ValLys: 5.434 ± 0.638
3.836ValLeu: 3.836 ± 0.479
1.838ValMet: 1.838 ± 0.322
3.676ValAsn: 3.676 ± 0.373
2.317ValPro: 2.317 ± 0.511
2.237ValGln: 2.237 ± 0.439
2.637ValArg: 2.637 ± 0.409
3.676ValSer: 3.676 ± 0.495
5.114ValThr: 5.114 ± 0.708
3.196ValVal: 3.196 ± 0.566
0.479ValTrp: 0.479 ± 0.157
2.477ValTyr: 2.477 ± 0.408
0.0ValXaa: 0.0 ± 0.0
Trp
0.799TrpAla: 0.799 ± 0.294
0.16TrpCys: 0.16 ± 0.121
1.199TrpAsp: 1.199 ± 0.261
0.559TrpGlu: 0.559 ± 0.207
0.32TrpPhe: 0.32 ± 0.137
0.639TrpGly: 0.639 ± 0.171
0.08TrpHis: 0.08 ± 0.075
0.799TrpIle: 0.799 ± 0.246
1.039TrpLys: 1.039 ± 0.381
1.119TrpLeu: 1.119 ± 0.325
0.32TrpMet: 0.32 ± 0.166
0.719TrpAsn: 0.719 ± 0.221
0.4TrpPro: 0.4 ± 0.182
0.559TrpGln: 0.559 ± 0.172
0.479TrpArg: 0.479 ± 0.265
0.479TrpSer: 0.479 ± 0.199
0.4TrpThr: 0.4 ± 0.143
0.719TrpVal: 0.719 ± 0.25
0.08TrpTrp: 0.08 ± 0.084
0.719TrpTyr: 0.719 ± 0.266
0.0TrpXaa: 0.0 ± 0.0
Tyr
2.557TyrAla: 2.557 ± 0.52
0.24TyrCys: 0.24 ± 0.129
2.078TyrAsp: 2.078 ± 0.441
2.717TyrGlu: 2.717 ± 0.534
1.119TyrPhe: 1.119 ± 0.325
2.397TyrGly: 2.397 ± 0.411
0.639TyrHis: 0.639 ± 0.213
2.557TyrIle: 2.557 ± 0.507
3.276TyrLys: 3.276 ± 0.581
3.276TyrLeu: 3.276 ± 0.514
0.799TyrMet: 0.799 ± 0.291
1.518TyrAsn: 1.518 ± 0.367
1.119TyrPro: 1.119 ± 0.263
0.479TyrGln: 0.479 ± 0.164
1.279TyrArg: 1.279 ± 0.348
1.758TyrSer: 1.758 ± 0.443
2.237TyrThr: 2.237 ± 0.463
3.276TyrVal: 3.276 ± 0.596
0.24TyrTrp: 0.24 ± 0.12
1.199TyrTyr: 1.199 ± 0.273
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 66 proteins (12515 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