Amino acid dipepetide frequency for Vibrio phage pYD38-A

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
10.409AlaAla: 10.409 ± 1.833
0.768AlaCys: 0.768 ± 0.222
6.078AlaAsp: 6.078 ± 0.772
5.729AlaGlu: 5.729 ± 0.736
1.677AlaPhe: 1.677 ± 0.38
5.799AlaGly: 5.799 ± 0.601
1.188AlaHis: 1.188 ± 0.311
5.938AlaIle: 5.938 ± 0.596
5.379AlaLys: 5.379 ± 0.648
7.405AlaLeu: 7.405 ± 1.139
3.633AlaMet: 3.633 ± 0.412
3.982AlaAsn: 3.982 ± 0.514
2.725AlaPro: 2.725 ± 0.466
4.401AlaGln: 4.401 ± 1.305
4.541AlaArg: 4.541 ± 0.632
6.637AlaSer: 6.637 ± 1.096
4.96AlaThr: 4.96 ± 0.615
5.24AlaVal: 5.24 ± 0.618
1.048AlaTrp: 1.048 ± 0.244
2.934AlaTyr: 2.934 ± 0.399
0.0AlaXaa: 0.0 ± 0.0
Cys
0.768CysAla: 0.768 ± 0.232
0.349CysCys: 0.349 ± 0.168
0.838CysAsp: 0.838 ± 0.187
0.838CysGlu: 0.838 ± 0.229
0.419CysPhe: 0.419 ± 0.183
1.188CysGly: 1.188 ± 0.384
0.279CysHis: 0.279 ± 0.145
0.629CysIle: 0.629 ± 0.292
0.559CysLys: 0.559 ± 0.178
0.908CysLeu: 0.908 ± 0.27
0.21CysMet: 0.21 ± 0.123
0.978CysAsn: 0.978 ± 0.306
0.768CysPro: 0.768 ± 0.217
0.349CysGln: 0.349 ± 0.158
0.978CysArg: 0.978 ± 0.302
0.419CysSer: 0.419 ± 0.158
0.559CysThr: 0.559 ± 0.201
0.838CysVal: 0.838 ± 0.259
0.489CysTrp: 0.489 ± 0.18
0.349CysTyr: 0.349 ± 0.174
0.0CysXaa: 0.0 ± 0.0
Asp
6.148AspAla: 6.148 ± 0.543
0.838AspCys: 0.838 ± 0.241
4.751AspAsp: 4.751 ± 0.631
4.401AspGlu: 4.401 ± 0.531
2.794AspPhe: 2.794 ± 0.553
6.008AspGly: 6.008 ± 0.793
1.048AspHis: 1.048 ± 0.302
4.192AspIle: 4.192 ± 0.492
3.703AspLys: 3.703 ± 0.516
3.144AspLeu: 3.144 ± 0.477
1.956AspMet: 1.956 ± 0.37
2.375AspAsn: 2.375 ± 0.44
1.467AspPro: 1.467 ± 0.3
1.956AspGln: 1.956 ± 0.362
2.864AspArg: 2.864 ± 0.601
3.493AspSer: 3.493 ± 0.588
2.864AspThr: 2.864 ± 0.452
4.611AspVal: 4.611 ± 0.494
0.768AspTrp: 0.768 ± 0.267
2.236AspTyr: 2.236 ± 0.437
0.0AspXaa: 0.0 ± 0.0
Glu
5.659GluAla: 5.659 ± 0.75
1.537GluCys: 1.537 ± 0.463
3.074GluAsp: 3.074 ± 0.468
4.331GluGlu: 4.331 ± 0.538
2.166GluPhe: 2.166 ± 0.394
3.074GluGly: 3.074 ± 0.443
1.258GluHis: 1.258 ± 0.341
4.751GluIle: 4.751 ± 0.635
4.052GluLys: 4.052 ± 0.651
5.659GluLeu: 5.659 ± 0.638
2.096GluMet: 2.096 ± 0.387
2.934GluAsn: 2.934 ± 0.419
2.305GluPro: 2.305 ± 0.372
3.423GluGln: 3.423 ± 0.518
3.423GluArg: 3.423 ± 0.434
4.192GluSer: 4.192 ± 0.549
2.725GluThr: 2.725 ± 0.491
4.611GluVal: 4.611 ± 0.611
1.677GluTrp: 1.677 ± 0.314
2.236GluTyr: 2.236 ± 0.356
0.0GluXaa: 0.0 ± 0.0
Phe
1.747PheAla: 1.747 ± 0.4
0.489PheCys: 0.489 ± 0.219
2.864PheAsp: 2.864 ± 0.447
2.375PheGlu: 2.375 ± 0.385
1.048PhePhe: 1.048 ± 0.258
3.004PheGly: 3.004 ± 0.449
0.699PheHis: 0.699 ± 0.226
1.747PheIle: 1.747 ± 0.377
1.886PheLys: 1.886 ± 0.427
1.747PheLeu: 1.747 ± 0.289
1.397PheMet: 1.397 ± 0.351
2.166PheAsn: 2.166 ± 0.439
0.838PhePro: 0.838 ± 0.204
0.629PheGln: 0.629 ± 0.188
1.747PheArg: 1.747 ± 0.355
2.166PheSer: 2.166 ± 0.333
1.956PheThr: 1.956 ± 0.349
1.537PheVal: 1.537 ± 0.299
0.699PheTrp: 0.699 ± 0.191
1.118PheTyr: 1.118 ± 0.24
0.0PheXaa: 0.0 ± 0.0
Gly
5.449GlyAla: 5.449 ± 0.697
0.768GlyCys: 0.768 ± 0.231
4.262GlyAsp: 4.262 ± 0.576
4.331GlyGlu: 4.331 ± 0.597
2.794GlyPhe: 2.794 ± 0.481
4.471GlyGly: 4.471 ± 0.618
0.908GlyHis: 0.908 ± 0.224
3.423GlyIle: 3.423 ± 0.432
6.148GlyLys: 6.148 ± 0.725
4.82GlyLeu: 4.82 ± 0.592
2.096GlyMet: 2.096 ± 0.388
3.353GlyAsn: 3.353 ± 0.456
1.327GlyPro: 1.327 ± 0.343
3.074GlyGln: 3.074 ± 0.508
3.982GlyArg: 3.982 ± 0.547
4.82GlySer: 4.82 ± 0.635
4.122GlyThr: 4.122 ± 0.688
6.288GlyVal: 6.288 ± 0.517
1.258GlyTrp: 1.258 ± 0.301
3.493GlyTyr: 3.493 ± 0.579
0.0GlyXaa: 0.0 ± 0.0
His
1.747HisAla: 1.747 ± 0.43
0.419HisCys: 0.419 ± 0.175
1.188HisAsp: 1.188 ± 0.259
0.978HisGlu: 0.978 ± 0.294
0.768HisPhe: 0.768 ± 0.24
1.607HisGly: 1.607 ± 0.34
0.279HisHis: 0.279 ± 0.137
1.118HisIle: 1.118 ± 0.341
1.397HisLys: 1.397 ± 0.352
1.258HisLeu: 1.258 ± 0.283
0.489HisMet: 0.489 ± 0.145
1.048HisAsn: 1.048 ± 0.287
0.908HisPro: 0.908 ± 0.239
0.559HisGln: 0.559 ± 0.18
0.838HisArg: 0.838 ± 0.276
0.629HisSer: 0.629 ± 0.197
0.419HisThr: 0.419 ± 0.197
1.118HisVal: 1.118 ± 0.289
0.21HisTrp: 0.21 ± 0.116
0.489HisTyr: 0.489 ± 0.247
0.0HisXaa: 0.0 ± 0.0
Ile
5.1IleAla: 5.1 ± 0.605
0.838IleCys: 0.838 ± 0.258
4.122IleAsp: 4.122 ± 0.513
4.751IleGlu: 4.751 ± 0.465
1.677IlePhe: 1.677 ± 0.294
4.471IleGly: 4.471 ± 0.411
1.048IleHis: 1.048 ± 0.305
4.471IleIle: 4.471 ± 0.551
3.912IleLys: 3.912 ± 0.579
4.192IleLeu: 4.192 ± 0.455
1.467IleMet: 1.467 ± 0.328
3.633IleAsn: 3.633 ± 0.399
2.236IlePro: 2.236 ± 0.287
1.886IleGln: 1.886 ± 0.338
3.423IleArg: 3.423 ± 0.572
3.563IleSer: 3.563 ± 0.515
4.122IleThr: 4.122 ± 0.492
4.331IleVal: 4.331 ± 0.513
0.908IleTrp: 0.908 ± 0.247
1.816IleTyr: 1.816 ± 0.367
0.0IleXaa: 0.0 ± 0.0
Lys
7.126LysAla: 7.126 ± 0.73
0.559LysCys: 0.559 ± 0.193
3.283LysAsp: 3.283 ± 0.614
3.423LysGlu: 3.423 ± 0.48
1.467LysPhe: 1.467 ± 0.321
3.773LysGly: 3.773 ± 0.487
1.327LysHis: 1.327 ± 0.377
3.842LysIle: 3.842 ± 0.6
3.842LysLys: 3.842 ± 0.622
5.309LysLeu: 5.309 ± 0.728
2.934LysMet: 2.934 ± 0.446
2.236LysAsn: 2.236 ± 0.34
2.794LysPro: 2.794 ± 0.429
2.934LysGln: 2.934 ± 0.375
3.004LysArg: 3.004 ± 0.707
4.401LysSer: 4.401 ± 0.54
3.773LysThr: 3.773 ± 0.422
3.912LysVal: 3.912 ± 0.486
1.188LysTrp: 1.188 ± 0.324
2.305LysTyr: 2.305 ± 0.478
0.0LysXaa: 0.0 ± 0.0
Leu
6.357LeuAla: 6.357 ± 1.033
0.559LeuCys: 0.559 ± 0.221
3.912LeuAsp: 3.912 ± 0.508
4.401LeuGlu: 4.401 ± 0.56
2.166LeuPhe: 2.166 ± 0.37
4.122LeuGly: 4.122 ± 0.423
0.978LeuHis: 0.978 ± 0.298
4.122LeuIle: 4.122 ± 0.504
5.729LeuLys: 5.729 ± 0.564
5.309LeuLeu: 5.309 ± 0.607
1.747LeuMet: 1.747 ± 0.282
3.982LeuAsn: 3.982 ± 0.419
2.515LeuPro: 2.515 ± 0.505
2.585LeuGln: 2.585 ± 0.409
4.96LeuArg: 4.96 ± 0.505
5.309LeuSer: 5.309 ± 0.55
5.519LeuThr: 5.519 ± 0.648
4.401LeuVal: 4.401 ± 0.53
1.188LeuTrp: 1.188 ± 0.259
3.423LeuTyr: 3.423 ± 0.483
0.0LeuXaa: 0.0 ± 0.0
Met
3.214MetAla: 3.214 ± 0.48
0.14MetCys: 0.14 ± 0.111
1.537MetAsp: 1.537 ± 0.361
1.467MetGlu: 1.467 ± 0.252
0.908MetPhe: 0.908 ± 0.213
1.747MetGly: 1.747 ± 0.352
0.838MetHis: 0.838 ± 0.269
2.026MetIle: 2.026 ± 0.4
2.166MetLys: 2.166 ± 0.428
2.305MetLeu: 2.305 ± 0.422
0.629MetMet: 0.629 ± 0.208
1.397MetAsn: 1.397 ± 0.296
1.327MetPro: 1.327 ± 0.326
1.188MetGln: 1.188 ± 0.355
1.327MetArg: 1.327 ± 0.342
1.467MetSer: 1.467 ± 0.345
2.794MetThr: 2.794 ± 0.364
1.607MetVal: 1.607 ± 0.305
0.559MetTrp: 0.559 ± 0.2
0.908MetTyr: 0.908 ± 0.247
0.0MetXaa: 0.0 ± 0.0
Asn
3.982AsnAla: 3.982 ± 0.619
0.489AsnCys: 0.489 ± 0.236
3.283AsnAsp: 3.283 ± 0.471
2.585AsnGlu: 2.585 ± 0.313
1.327AsnPhe: 1.327 ± 0.349
4.471AsnGly: 4.471 ± 0.51
0.908AsnHis: 0.908 ± 0.261
3.563AsnIle: 3.563 ± 0.539
3.912AsnLys: 3.912 ± 0.708
2.655AsnLeu: 2.655 ± 0.355
1.327AsnMet: 1.327 ± 0.339
3.004AsnAsn: 3.004 ± 0.673
1.886AsnPro: 1.886 ± 0.36
2.096AsnGln: 2.096 ± 0.383
2.585AsnArg: 2.585 ± 0.476
2.725AsnSer: 2.725 ± 0.475
2.725AsnThr: 2.725 ± 0.484
3.773AsnVal: 3.773 ± 0.459
0.349AsnTrp: 0.349 ± 0.137
1.327AsnTyr: 1.327 ± 0.269
0.0AsnXaa: 0.0 ± 0.0
Pro
2.585ProAla: 2.585 ± 0.472
0.419ProCys: 0.419 ± 0.199
2.725ProAsp: 2.725 ± 0.566
3.283ProGlu: 3.283 ± 0.473
1.327ProPhe: 1.327 ± 0.261
2.445ProGly: 2.445 ± 0.502
1.188ProHis: 1.188 ± 0.299
1.467ProIle: 1.467 ± 0.34
2.166ProLys: 2.166 ± 0.395
2.096ProLeu: 2.096 ± 0.436
0.838ProMet: 0.838 ± 0.252
1.467ProAsn: 1.467 ± 0.283
1.188ProPro: 1.188 ± 0.352
1.188ProGln: 1.188 ± 0.275
1.258ProArg: 1.258 ± 0.299
2.305ProSer: 2.305 ± 0.37
1.747ProThr: 1.747 ± 0.341
3.703ProVal: 3.703 ± 0.589
0.489ProTrp: 0.489 ± 0.192
1.188ProTyr: 1.188 ± 0.312
0.0ProXaa: 0.0 ± 0.0
Gln
3.283GlnAla: 3.283 ± 0.987
0.489GlnCys: 0.489 ± 0.218
1.956GlnAsp: 1.956 ± 0.364
2.445GlnGlu: 2.445 ± 0.342
1.327GlnPhe: 1.327 ± 0.319
1.537GlnGly: 1.537 ± 0.454
0.908GlnHis: 0.908 ± 0.236
2.794GlnIle: 2.794 ± 0.34
2.166GlnLys: 2.166 ± 0.449
3.633GlnLeu: 3.633 ± 0.483
1.537GlnMet: 1.537 ± 0.323
1.327GlnAsn: 1.327 ± 0.318
1.607GlnPro: 1.607 ± 0.335
2.655GlnGln: 2.655 ± 0.742
2.515GlnArg: 2.515 ± 0.397
3.633GlnSer: 3.633 ± 0.51
1.956GlnThr: 1.956 ± 0.417
2.375GlnVal: 2.375 ± 0.433
0.768GlnTrp: 0.768 ± 0.205
1.327GlnTyr: 1.327 ± 0.282
0.0GlnXaa: 0.0 ± 0.0
Arg
4.331ArgAla: 4.331 ± 0.405
1.188ArgCys: 1.188 ± 0.377
3.004ArgAsp: 3.004 ± 0.489
4.401ArgGlu: 4.401 ± 0.599
1.747ArgPhe: 1.747 ± 0.399
3.214ArgGly: 3.214 ± 0.433
0.559ArgHis: 0.559 ± 0.171
3.214ArgIle: 3.214 ± 0.504
3.004ArgLys: 3.004 ± 0.613
4.401ArgLeu: 4.401 ± 0.626
1.886ArgMet: 1.886 ± 0.47
3.004ArgAsn: 3.004 ± 0.426
1.537ArgPro: 1.537 ± 0.342
1.886ArgGln: 1.886 ± 0.418
2.725ArgArg: 2.725 ± 0.544
2.585ArgSer: 2.585 ± 0.356
2.655ArgThr: 2.655 ± 0.483
3.214ArgVal: 3.214 ± 0.43
0.629ArgTrp: 0.629 ± 0.233
2.585ArgTyr: 2.585 ± 0.367
0.0ArgXaa: 0.0 ± 0.0
Ser
4.751SerAla: 4.751 ± 0.729
0.838SerCys: 0.838 ± 0.26
3.423SerAsp: 3.423 ± 0.362
4.192SerGlu: 4.192 ± 0.49
2.166SerPhe: 2.166 ± 0.297
6.986SerGly: 6.986 ± 0.858
1.118SerHis: 1.118 ± 0.316
4.052SerIle: 4.052 ± 0.464
3.633SerLys: 3.633 ± 0.629
5.449SerLeu: 5.449 ± 0.861
2.096SerMet: 2.096 ± 0.467
2.934SerAsn: 2.934 ± 0.604
1.886SerPro: 1.886 ± 0.399
3.004SerGln: 3.004 ± 0.516
3.144SerArg: 3.144 ± 0.503
4.122SerSer: 4.122 ± 0.581
3.773SerThr: 3.773 ± 0.664
4.192SerVal: 4.192 ± 0.847
1.188SerTrp: 1.188 ± 0.359
2.794SerTyr: 2.794 ± 0.53
0.0SerXaa: 0.0 ± 0.0
Thr
5.309ThrAla: 5.309 ± 0.73
0.489ThrCys: 0.489 ± 0.179
3.423ThrAsp: 3.423 ± 0.44
3.633ThrGlu: 3.633 ± 0.496
1.188ThrPhe: 1.188 ± 0.283
5.938ThrGly: 5.938 ± 0.719
0.838ThrHis: 0.838 ± 0.291
3.353ThrIle: 3.353 ± 0.479
3.144ThrLys: 3.144 ± 0.507
4.331ThrLeu: 4.331 ± 0.607
0.908ThrMet: 0.908 ± 0.252
2.934ThrAsn: 2.934 ± 0.551
3.633ThrPro: 3.633 ± 0.496
1.886ThrGln: 1.886 ± 0.357
3.144ThrArg: 3.144 ± 0.476
4.262ThrSer: 4.262 ± 0.539
3.353ThrThr: 3.353 ± 0.628
3.912ThrVal: 3.912 ± 0.7
0.768ThrTrp: 0.768 ± 0.294
2.236ThrTyr: 2.236 ± 0.432
0.0ThrXaa: 0.0 ± 0.0
Val
7.266ValAla: 7.266 ± 0.881
0.699ValCys: 0.699 ± 0.256
4.052ValAsp: 4.052 ± 0.585
4.89ValGlu: 4.89 ± 0.548
2.515ValPhe: 2.515 ± 0.476
4.122ValGly: 4.122 ± 0.512
1.118ValHis: 1.118 ± 0.258
4.96ValIle: 4.96 ± 0.508
3.912ValLys: 3.912 ± 0.574
4.192ValLeu: 4.192 ± 0.5
1.188ValMet: 1.188 ± 0.246
3.703ValAsn: 3.703 ± 0.425
2.305ValPro: 2.305 ± 0.393
2.236ValGln: 2.236 ± 0.385
2.794ValArg: 2.794 ± 0.44
5.379ValSer: 5.379 ± 0.449
5.379ValThr: 5.379 ± 0.552
4.96ValVal: 4.96 ± 0.666
1.188ValTrp: 1.188 ± 0.304
1.607ValTyr: 1.607 ± 0.321
0.0ValXaa: 0.0 ± 0.0
Trp
1.048TrpAla: 1.048 ± 0.272
0.279TrpCys: 0.279 ± 0.131
1.258TrpAsp: 1.258 ± 0.223
0.838TrpGlu: 0.838 ± 0.285
0.838TrpPhe: 0.838 ± 0.241
0.559TrpGly: 0.559 ± 0.233
0.349TrpHis: 0.349 ± 0.204
0.629TrpIle: 0.629 ± 0.22
1.048TrpLys: 1.048 ± 0.257
1.467TrpLeu: 1.467 ± 0.332
0.349TrpMet: 0.349 ± 0.175
1.118TrpAsn: 1.118 ± 0.269
0.559TrpPro: 0.559 ± 0.164
0.978TrpGln: 0.978 ± 0.299
0.908TrpArg: 0.908 ± 0.26
0.908TrpSer: 0.908 ± 0.25
1.118TrpThr: 1.118 ± 0.272
1.397TrpVal: 1.397 ± 0.37
0.21TrpTrp: 0.21 ± 0.123
0.279TrpTyr: 0.279 ± 0.134
0.0TrpXaa: 0.0 ± 0.0
Tyr
4.192TyrAla: 4.192 ± 0.482
0.559TyrCys: 0.559 ± 0.169
2.585TyrAsp: 2.585 ± 0.451
1.886TyrGlu: 1.886 ± 0.355
1.537TyrPhe: 1.537 ± 0.321
2.655TyrGly: 2.655 ± 0.514
0.629TyrHis: 0.629 ± 0.217
1.677TyrIle: 1.677 ± 0.397
1.747TyrLys: 1.747 ± 0.33
3.004TyrLeu: 3.004 ± 0.41
0.699TyrMet: 0.699 ± 0.219
1.397TyrAsn: 1.397 ± 0.415
1.258TyrPro: 1.258 ± 0.264
1.327TyrGln: 1.327 ± 0.292
1.607TyrArg: 1.607 ± 0.35
2.725TyrSer: 2.725 ± 0.466
2.166TyrThr: 2.166 ± 0.385
2.445TyrVal: 2.445 ± 0.382
0.559TyrTrp: 0.559 ± 0.181
1.537TyrTyr: 1.537 ± 0.36
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 77 proteins (14315 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