Amino acid dipepetide frequency for Vibrio phage XM1

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
4.274AlaAla: 4.274 ± 0.692
0.67AlaCys: 0.67 ± 0.232
3.855AlaAsp: 3.855 ± 0.464
4.693AlaGlu: 4.693 ± 0.634
2.095AlaPhe: 2.095 ± 0.415
4.525AlaGly: 4.525 ± 0.628
1.006AlaHis: 1.006 ± 0.228
5.279AlaIle: 5.279 ± 0.754
4.944AlaLys: 4.944 ± 0.837
6.788AlaLeu: 6.788 ± 0.829
1.76AlaMet: 1.76 ± 0.513
3.771AlaAsn: 3.771 ± 0.527
1.592AlaPro: 1.592 ± 0.31
3.184AlaGln: 3.184 ± 0.569
2.598AlaArg: 2.598 ± 0.497
5.866AlaSer: 5.866 ± 0.85
4.441AlaThr: 4.441 ± 0.753
4.609AlaVal: 4.609 ± 0.833
0.838AlaTrp: 0.838 ± 0.246
1.676AlaTyr: 1.676 ± 0.392
0.0AlaXaa: 0.0 ± 0.0
Cys
0.084CysAla: 0.084 ± 0.069
0.168CysCys: 0.168 ± 0.149
1.089CysAsp: 1.089 ± 0.271
1.089CysGlu: 1.089 ± 0.28
0.335CysPhe: 0.335 ± 0.189
0.587CysGly: 0.587 ± 0.228
0.168CysHis: 0.168 ± 0.134
0.587CysIle: 0.587 ± 0.197
0.587CysLys: 0.587 ± 0.21
0.838CysLeu: 0.838 ± 0.309
0.251CysMet: 0.251 ± 0.138
0.67CysAsn: 0.67 ± 0.314
0.335CysPro: 0.335 ± 0.169
0.419CysGln: 0.419 ± 0.169
1.006CysArg: 1.006 ± 0.274
0.503CysSer: 0.503 ± 0.233
0.251CysThr: 0.251 ± 0.124
0.251CysVal: 0.251 ± 0.152
0.251CysTrp: 0.251 ± 0.125
0.503CysTyr: 0.503 ± 0.208
0.0CysXaa: 0.0 ± 0.0
Asp
5.447AspAla: 5.447 ± 0.543
0.754AspCys: 0.754 ± 0.27
4.441AspAsp: 4.441 ± 0.618
5.028AspGlu: 5.028 ± 0.827
4.19AspPhe: 4.19 ± 0.538
5.866AspGly: 5.866 ± 0.713
1.173AspHis: 1.173 ± 0.258
3.771AspIle: 3.771 ± 0.628
4.19AspLys: 4.19 ± 0.641
4.693AspLeu: 4.693 ± 0.702
1.425AspMet: 1.425 ± 0.352
2.682AspAsn: 2.682 ± 0.549
2.263AspPro: 2.263 ± 0.411
2.095AspGln: 2.095 ± 0.399
1.676AspArg: 1.676 ± 0.375
3.687AspSer: 3.687 ± 0.62
3.603AspThr: 3.603 ± 0.555
3.603AspVal: 3.603 ± 0.437
1.341AspTrp: 1.341 ± 0.296
2.43AspTyr: 2.43 ± 0.555
0.0AspXaa: 0.0 ± 0.0
Glu
4.358GluAla: 4.358 ± 0.644
0.419GluCys: 0.419 ± 0.174
3.352GluAsp: 3.352 ± 0.564
5.447GluGlu: 5.447 ± 1.084
4.609GluPhe: 4.609 ± 0.677
3.603GluGly: 3.603 ± 0.648
0.922GluHis: 0.922 ± 0.266
5.028GluIle: 5.028 ± 0.553
5.363GluLys: 5.363 ± 0.985
7.542GluLeu: 7.542 ± 1.047
2.346GluMet: 2.346 ± 0.485
3.939GluAsn: 3.939 ± 0.765
2.849GluPro: 2.849 ± 0.803
4.022GluGln: 4.022 ± 0.496
3.101GluArg: 3.101 ± 0.69
6.369GluSer: 6.369 ± 0.73
4.022GluThr: 4.022 ± 0.652
5.028GluVal: 5.028 ± 0.632
0.838GluTrp: 0.838 ± 0.243
2.263GluTyr: 2.263 ± 0.47
0.0GluXaa: 0.0 ± 0.0
Phe
3.352PheAla: 3.352 ± 0.544
0.503PheCys: 0.503 ± 0.249
3.52PheAsp: 3.52 ± 0.493
3.352PheGlu: 3.352 ± 0.353
1.76PhePhe: 1.76 ± 0.409
3.436PheGly: 3.436 ± 0.628
0.587PheHis: 0.587 ± 0.192
3.352PheIle: 3.352 ± 0.641
3.184PheLys: 3.184 ± 0.392
2.263PheLeu: 2.263 ± 0.371
0.838PheMet: 0.838 ± 0.269
2.514PheAsn: 2.514 ± 0.45
0.838PhePro: 0.838 ± 0.328
1.089PheGln: 1.089 ± 0.259
1.257PheArg: 1.257 ± 0.317
4.944PheSer: 4.944 ± 0.741
2.43PheThr: 2.43 ± 0.336
2.346PheVal: 2.346 ± 0.446
0.587PheTrp: 0.587 ± 0.287
1.341PheTyr: 1.341 ± 0.383
0.0PheXaa: 0.0 ± 0.0
Gly
4.358GlyAla: 4.358 ± 0.887
0.419GlyCys: 0.419 ± 0.22
4.609GlyAsp: 4.609 ± 0.624
4.86GlyGlu: 4.86 ± 0.606
4.106GlyPhe: 4.106 ± 0.704
5.112GlyGly: 5.112 ± 0.754
0.67GlyHis: 0.67 ± 0.205
3.687GlyIle: 3.687 ± 0.612
4.944GlyLys: 4.944 ± 0.837
5.279GlyLeu: 5.279 ± 0.731
2.095GlyMet: 2.095 ± 0.355
3.352GlyAsn: 3.352 ± 0.528
0.922GlyPro: 0.922 ± 0.331
2.765GlyGln: 2.765 ± 0.38
3.436GlyArg: 3.436 ± 0.469
5.615GlySer: 5.615 ± 0.748
3.352GlyThr: 3.352 ± 0.498
6.201GlyVal: 6.201 ± 0.609
0.587GlyTrp: 0.587 ± 0.189
3.687GlyTyr: 3.687 ± 0.484
0.0GlyXaa: 0.0 ± 0.0
His
1.425HisAla: 1.425 ± 0.3
0.168HisCys: 0.168 ± 0.125
1.006HisAsp: 1.006 ± 0.382
1.089HisGlu: 1.089 ± 0.264
0.251HisPhe: 0.251 ± 0.144
0.754HisGly: 0.754 ± 0.246
0.251HisHis: 0.251 ± 0.173
0.587HisIle: 0.587 ± 0.271
1.089HisLys: 1.089 ± 0.272
1.76HisLeu: 1.76 ± 0.504
0.084HisMet: 0.084 ± 0.075
0.587HisAsn: 0.587 ± 0.201
0.587HisPro: 0.587 ± 0.244
0.587HisGln: 0.587 ± 0.195
0.503HisArg: 0.503 ± 0.193
0.754HisSer: 0.754 ± 0.206
0.754HisThr: 0.754 ± 0.259
1.173HisVal: 1.173 ± 0.238
0.251HisTrp: 0.251 ± 0.124
0.335HisTyr: 0.335 ± 0.189
0.0HisXaa: 0.0 ± 0.0
Ile
4.022IleAla: 4.022 ± 0.567
0.67IleCys: 0.67 ± 0.275
5.279IleAsp: 5.279 ± 0.763
5.531IleGlu: 5.531 ± 0.715
1.76IlePhe: 1.76 ± 0.465
3.771IleGly: 3.771 ± 0.516
0.67IleHis: 0.67 ± 0.216
3.771IleIle: 3.771 ± 0.426
4.944IleLys: 4.944 ± 0.727
4.106IleLeu: 4.106 ± 0.574
1.006IleMet: 1.006 ± 0.289
3.939IleAsn: 3.939 ± 0.51
2.514IlePro: 2.514 ± 0.438
2.682IleGln: 2.682 ± 0.472
2.765IleArg: 2.765 ± 0.441
4.358IleSer: 4.358 ± 0.578
4.525IleThr: 4.525 ± 0.532
3.436IleVal: 3.436 ± 0.589
0.838IleTrp: 0.838 ± 0.25
2.011IleTyr: 2.011 ± 0.502
0.0IleXaa: 0.0 ± 0.0
Lys
5.196LysAla: 5.196 ± 0.794
1.089LysCys: 1.089 ± 0.302
3.101LysAsp: 3.101 ± 0.498
4.609LysGlu: 4.609 ± 0.776
3.687LysPhe: 3.687 ± 0.466
3.268LysGly: 3.268 ± 0.461
1.76LysHis: 1.76 ± 0.424
4.693LysIle: 4.693 ± 0.612
4.693LysLys: 4.693 ± 0.89
6.872LysLeu: 6.872 ± 0.752
1.592LysMet: 1.592 ± 0.508
3.352LysAsn: 3.352 ± 0.394
3.52LysPro: 3.52 ± 0.676
2.849LysGln: 2.849 ± 0.491
2.765LysArg: 2.765 ± 0.44
4.693LysSer: 4.693 ± 0.536
3.603LysThr: 3.603 ± 0.516
3.939LysVal: 3.939 ± 0.559
1.006LysTrp: 1.006 ± 0.294
2.346LysTyr: 2.346 ± 0.519
0.0LysXaa: 0.0 ± 0.0
Leu
4.777LeuAla: 4.777 ± 0.485
0.838LeuCys: 0.838 ± 0.307
5.028LeuAsp: 5.028 ± 0.702
6.788LeuGlu: 6.788 ± 0.857
2.011LeuPhe: 2.011 ± 0.362
6.453LeuGly: 6.453 ± 0.898
0.754LeuHis: 0.754 ± 0.262
6.201LeuIle: 6.201 ± 0.884
6.117LeuLys: 6.117 ± 0.856
6.034LeuLeu: 6.034 ± 0.69
2.179LeuMet: 2.179 ± 0.462
5.363LeuAsn: 5.363 ± 0.547
3.268LeuPro: 3.268 ± 0.368
2.598LeuGln: 2.598 ± 0.47
3.603LeuArg: 3.603 ± 0.623
5.95LeuSer: 5.95 ± 0.58
5.196LeuThr: 5.196 ± 0.579
5.028LeuVal: 5.028 ± 0.628
1.089LeuTrp: 1.089 ± 0.32
1.927LeuTyr: 1.927 ± 0.368
0.0LeuXaa: 0.0 ± 0.0
Met
2.682MetAla: 2.682 ± 0.422
0.168MetCys: 0.168 ± 0.119
0.922MetAsp: 0.922 ± 0.341
1.257MetGlu: 1.257 ± 0.298
0.67MetPhe: 0.67 ± 0.189
0.922MetGly: 0.922 ± 0.229
0.335MetHis: 0.335 ± 0.154
1.173MetIle: 1.173 ± 0.351
2.011MetLys: 2.011 ± 0.399
1.508MetLeu: 1.508 ± 0.308
0.419MetMet: 0.419 ± 0.19
1.508MetAsn: 1.508 ± 0.43
0.503MetPro: 0.503 ± 0.193
0.922MetGln: 0.922 ± 0.248
1.173MetArg: 1.173 ± 0.335
3.017MetSer: 3.017 ± 0.505
1.508MetThr: 1.508 ± 0.358
1.089MetVal: 1.089 ± 0.29
0.251MetTrp: 0.251 ± 0.139
0.838MetTyr: 0.838 ± 0.273
0.0MetXaa: 0.0 ± 0.0
Asn
4.777AsnAla: 4.777 ± 0.549
0.419AsnCys: 0.419 ± 0.192
3.687AsnAsp: 3.687 ± 0.495
3.939AsnGlu: 3.939 ± 0.451
1.592AsnPhe: 1.592 ± 0.339
5.363AsnGly: 5.363 ± 0.694
0.503AsnHis: 0.503 ± 0.192
2.43AsnIle: 2.43 ± 0.619
2.514AsnLys: 2.514 ± 0.435
4.022AsnLeu: 4.022 ± 0.553
0.838AsnMet: 0.838 ± 0.244
3.101AsnAsn: 3.101 ± 0.437
3.017AsnPro: 3.017 ± 0.418
2.682AsnGln: 2.682 ± 0.56
2.43AsnArg: 2.43 ± 0.498
5.112AsnSer: 5.112 ± 0.633
2.598AsnThr: 2.598 ± 0.464
2.682AsnVal: 2.682 ± 0.477
0.503AsnTrp: 0.503 ± 0.161
1.425AsnTyr: 1.425 ± 0.323
0.0AsnXaa: 0.0 ± 0.0
Pro
2.179ProAla: 2.179 ± 0.418
0.251ProCys: 0.251 ± 0.153
3.017ProAsp: 3.017 ± 0.426
3.352ProGlu: 3.352 ± 0.917
1.508ProPhe: 1.508 ± 0.406
1.508ProGly: 1.508 ± 0.394
0.335ProHis: 0.335 ± 0.188
2.263ProIle: 2.263 ± 0.572
1.927ProLys: 1.927 ± 0.464
2.514ProLeu: 2.514 ± 0.478
0.754ProMet: 0.754 ± 0.29
1.676ProAsn: 1.676 ± 0.298
0.922ProPro: 0.922 ± 0.315
1.341ProGln: 1.341 ± 0.402
0.754ProArg: 0.754 ± 0.212
2.765ProSer: 2.765 ± 0.522
2.263ProThr: 2.263 ± 0.482
2.765ProVal: 2.765 ± 0.419
0.084ProTrp: 0.084 ± 0.074
1.173ProTyr: 1.173 ± 0.305
0.0ProXaa: 0.0 ± 0.0
Gln
2.598GlnAla: 2.598 ± 0.495
0.335GlnCys: 0.335 ± 0.167
1.425GlnAsp: 1.425 ± 0.365
3.352GlnGlu: 3.352 ± 0.643
1.676GlnPhe: 1.676 ± 0.26
2.346GlnGly: 2.346 ± 0.436
0.419GlnHis: 0.419 ± 0.177
2.682GlnIle: 2.682 ± 0.474
2.682GlnLys: 2.682 ± 0.509
3.101GlnLeu: 3.101 ± 0.479
1.006GlnMet: 1.006 ± 0.261
1.844GlnAsn: 1.844 ± 0.353
0.838GlnPro: 0.838 ± 0.216
2.43GlnGln: 2.43 ± 0.436
1.76GlnArg: 1.76 ± 0.349
3.268GlnSer: 3.268 ± 0.627
2.095GlnThr: 2.095 ± 0.449
2.598GlnVal: 2.598 ± 0.508
0.587GlnTrp: 0.587 ± 0.176
1.508GlnTyr: 1.508 ± 0.406
0.0GlnXaa: 0.0 ± 0.0
Arg
3.101ArgAla: 3.101 ± 0.552
0.838ArgCys: 0.838 ± 0.283
2.346ArgAsp: 2.346 ± 0.468
2.933ArgGlu: 2.933 ± 0.582
2.514ArgPhe: 2.514 ± 0.469
2.43ArgGly: 2.43 ± 0.532
0.587ArgHis: 0.587 ± 0.249
2.095ArgIle: 2.095 ± 0.344
2.598ArgLys: 2.598 ± 0.456
3.603ArgLeu: 3.603 ± 0.56
1.341ArgMet: 1.341 ± 0.35
2.849ArgAsn: 2.849 ± 0.482
1.508ArgPro: 1.508 ± 0.398
1.341ArgGln: 1.341 ± 0.306
2.598ArgArg: 2.598 ± 0.601
2.263ArgSer: 2.263 ± 0.366
1.927ArgThr: 1.927 ± 0.392
3.52ArgVal: 3.52 ± 0.647
0.251ArgTrp: 0.251 ± 0.142
2.179ArgTyr: 2.179 ± 0.327
0.0ArgXaa: 0.0 ± 0.0
Ser
5.028SerAla: 5.028 ± 0.81
0.503SerCys: 0.503 ± 0.213
6.034SerAsp: 6.034 ± 0.55
6.788SerGlu: 6.788 ± 0.776
3.268SerPhe: 3.268 ± 0.495
6.956SerGly: 6.956 ± 0.714
1.173SerHis: 1.173 ± 0.269
4.944SerIle: 4.944 ± 0.636
5.615SerLys: 5.615 ± 0.682
6.034SerLeu: 6.034 ± 0.9
2.179SerMet: 2.179 ± 0.401
4.358SerAsn: 4.358 ± 0.675
2.43SerPro: 2.43 ± 0.383
2.179SerGln: 2.179 ± 0.426
3.101SerArg: 3.101 ± 0.458
7.123SerSer: 7.123 ± 0.751
4.19SerThr: 4.19 ± 0.652
5.866SerVal: 5.866 ± 0.772
0.67SerTrp: 0.67 ± 0.219
2.179SerTyr: 2.179 ± 0.286
0.0SerXaa: 0.0 ± 0.0
Thr
3.687ThrAla: 3.687 ± 0.645
0.67ThrCys: 0.67 ± 0.206
3.939ThrAsp: 3.939 ± 0.562
4.274ThrGlu: 4.274 ± 0.613
2.346ThrPhe: 2.346 ± 0.428
4.609ThrGly: 4.609 ± 0.563
0.838ThrHis: 0.838 ± 0.32
3.939ThrIle: 3.939 ± 0.481
3.52ThrLys: 3.52 ± 0.501
4.525ThrLeu: 4.525 ± 0.663
0.922ThrMet: 0.922 ± 0.298
3.017ThrAsn: 3.017 ± 0.551
3.017ThrPro: 3.017 ± 0.43
2.011ThrGln: 2.011 ± 0.315
2.514ThrArg: 2.514 ± 0.504
3.603ThrSer: 3.603 ± 0.536
3.771ThrThr: 3.771 ± 0.805
4.86ThrVal: 4.86 ± 0.794
0.754ThrTrp: 0.754 ± 0.235
1.257ThrTyr: 1.257 ± 0.272
0.0ThrXaa: 0.0 ± 0.0
Val
4.19ValAla: 4.19 ± 0.529
0.251ValCys: 0.251 ± 0.143
5.112ValAsp: 5.112 ± 0.708
3.52ValGlu: 3.52 ± 0.731
3.017ValPhe: 3.017 ± 0.488
4.693ValGly: 4.693 ± 0.808
0.838ValHis: 0.838 ± 0.282
4.19ValIle: 4.19 ± 0.471
4.441ValLys: 4.441 ± 0.655
5.531ValLeu: 5.531 ± 0.696
1.006ValMet: 1.006 ± 0.237
3.268ValAsn: 3.268 ± 0.433
1.508ValPro: 1.508 ± 0.255
2.179ValGln: 2.179 ± 0.435
2.514ValArg: 2.514 ± 0.384
7.375ValSer: 7.375 ± 0.776
4.86ValThr: 4.86 ± 0.632
4.609ValVal: 4.609 ± 0.611
0.587ValTrp: 0.587 ± 0.211
2.765ValTyr: 2.765 ± 0.419
0.0ValXaa: 0.0 ± 0.0
Trp
1.257TrpAla: 1.257 ± 0.288
0.084TrpCys: 0.084 ± 0.081
0.419TrpAsp: 0.419 ± 0.193
1.089TrpGlu: 1.089 ± 0.232
0.587TrpPhe: 0.587 ± 0.226
0.922TrpGly: 0.922 ± 0.255
0.251TrpHis: 0.251 ± 0.135
0.084TrpIle: 0.084 ± 0.075
1.425TrpLys: 1.425 ± 0.283
1.173TrpLeu: 1.173 ± 0.331
0.168TrpMet: 0.168 ± 0.107
0.335TrpAsn: 0.335 ± 0.133
0.335TrpPro: 0.335 ± 0.17
0.251TrpGln: 0.251 ± 0.16
0.67TrpArg: 0.67 ± 0.217
0.838TrpSer: 0.838 ± 0.263
0.754TrpThr: 0.754 ± 0.247
0.67TrpVal: 0.67 ± 0.235
0.084TrpTrp: 0.084 ± 0.096
0.503TrpTyr: 0.503 ± 0.173
0.0TrpXaa: 0.0 ± 0.0
Tyr
1.676TyrAla: 1.676 ± 0.309
0.754TyrCys: 0.754 ± 0.254
2.179TyrAsp: 2.179 ± 0.358
2.43TyrGlu: 2.43 ± 0.528
1.508TyrPhe: 1.508 ± 0.48
2.933TyrGly: 2.933 ± 0.498
0.754TyrHis: 0.754 ± 0.319
1.927TyrIle: 1.927 ± 0.399
1.844TyrLys: 1.844 ± 0.498
3.017TyrLeu: 3.017 ± 0.543
0.587TyrMet: 0.587 ± 0.187
1.508TyrAsn: 1.508 ± 0.308
0.587TyrPro: 0.587 ± 0.229
0.922TyrGln: 0.922 ± 0.255
2.598TyrArg: 2.598 ± 0.407
2.514TyrSer: 2.514 ± 0.368
1.927TyrThr: 1.927 ± 0.341
2.179TyrVal: 2.179 ± 0.345
0.503TyrTrp: 0.503 ± 0.219
1.173TyrTyr: 1.173 ± 0.364
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 55 proteins (11934 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