Amino acid dipepetide frequency for HIV-1 CRF04_cpx

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
6.098AlaAla: 6.098 ± 3.161
1.524AlaCys: 1.524 ± 0.584
1.905AlaAsp: 1.905 ± 0.66
6.86AlaGlu: 6.86 ± 1.261
1.143AlaPhe: 1.143 ± 0.475
5.716AlaGly: 5.716 ± 1.105
1.143AlaHis: 1.143 ± 0.523
4.192AlaIle: 4.192 ± 1.104
3.43AlaLys: 3.43 ± 1.297
4.573AlaLeu: 4.573 ± 0.906
2.668AlaMet: 2.668 ± 0.616
1.524AlaAsn: 1.524 ± 0.642
2.287AlaPro: 2.287 ± 1.192
1.905AlaGln: 1.905 ± 0.871
5.335AlaArg: 5.335 ± 1.397
4.954AlaSer: 4.954 ± 1.095
4.192AlaThr: 4.192 ± 1.475
3.811AlaVal: 3.811 ± 1.415
0.762AlaTrp: 0.762 ± 0.786
1.905AlaTyr: 1.905 ± 0.715
0.0AlaXaa: 0.0 ± 0.0
Cys
1.143CysAla: 1.143 ± 0.955
0.381CysCys: 0.381 ± 0.558
0.0CysAsp: 0.0 ± 0.0
0.0CysGlu: 0.0 ± 0.0
1.905CysPhe: 1.905 ± 1.659
1.524CysGly: 1.524 ± 0.775
0.0CysHis: 0.0 ± 0.0
0.762CysIle: 0.762 ± 0.34
1.524CysLys: 1.524 ± 0.569
1.143CysLeu: 1.143 ± 0.889
0.381CysMet: 0.381 ± 0.411
2.287CysAsn: 2.287 ± 1.226
0.381CysPro: 0.381 ± 0.318
1.905CysGln: 1.905 ± 0.985
0.762CysArg: 0.762 ± 0.48
2.287CysSer: 2.287 ± 0.962
2.668CysThr: 2.668 ± 0.863
1.524CysVal: 1.524 ± 0.584
1.143CysTrp: 1.143 ± 0.586
0.0CysTyr: 0.0 ± 0.0
0.0CysXaa: 0.0 ± 0.0
Asp
1.524AspAla: 1.524 ± 0.552
3.049AspCys: 3.049 ± 0.841
0.762AspAsp: 0.762 ± 0.538
1.143AspGlu: 1.143 ± 0.671
1.143AspPhe: 1.143 ± 0.84
2.287AspGly: 2.287 ± 0.851
0.0AspHis: 0.0 ± 0.0
4.954AspIle: 4.954 ± 1.504
4.192AspLys: 4.192 ± 0.776
4.192AspLeu: 4.192 ± 1.285
1.524AspMet: 1.524 ± 0.657
2.668AspAsn: 2.668 ± 0.871
3.43AspPro: 3.43 ± 1.195
1.143AspGln: 1.143 ± 0.71
1.524AspArg: 1.524 ± 0.642
3.811AspSer: 3.811 ± 1.518
2.668AspThr: 2.668 ± 0.615
1.143AspVal: 1.143 ± 0.443
1.143AspTrp: 1.143 ± 0.606
0.762AspTyr: 0.762 ± 0.321
0.0AspXaa: 0.0 ± 0.0
Glu
6.098GluAla: 6.098 ± 1.27
0.762GluCys: 0.762 ± 0.321
2.668GluAsp: 2.668 ± 1.713
8.765GluGlu: 8.765 ± 2.838
1.905GluPhe: 1.905 ± 0.743
4.573GluGly: 4.573 ± 0.927
1.143GluHis: 1.143 ± 0.807
6.479GluIle: 6.479 ± 1.218
3.811GluLys: 3.811 ± 0.699
6.86GluLeu: 6.86 ± 1.284
0.762GluMet: 0.762 ± 0.599
1.905GluAsn: 1.905 ± 0.715
6.479GluPro: 6.479 ± 1.319
3.43GluGln: 3.43 ± 0.897
4.573GluArg: 4.573 ± 2.204
1.143GluSer: 1.143 ± 0.698
4.954GluThr: 4.954 ± 1.846
4.573GluVal: 4.573 ± 1.291
1.143GluTrp: 1.143 ± 0.57
1.524GluTyr: 1.524 ± 0.772
0.0GluXaa: 0.0 ± 0.0
Phe
1.905PheAla: 1.905 ± 0.712
0.762PheCys: 0.762 ± 0.613
1.143PheAsp: 1.143 ± 0.875
0.381PheGlu: 0.381 ± 0.318
1.524PhePhe: 1.524 ± 0.423
1.143PheGly: 1.143 ± 0.477
0.0PheHis: 0.0 ± 0.0
1.905PheIle: 1.905 ± 1.067
2.668PheLys: 2.668 ± 0.969
2.287PheLeu: 2.287 ± 0.833
0.0PheMet: 0.0 ± 0.0
2.287PheAsn: 2.287 ± 0.826
2.668PhePro: 2.668 ± 1.442
0.762PheGln: 0.762 ± 0.538
3.43PheArg: 3.43 ± 1.239
1.524PheSer: 1.524 ± 0.642
1.905PheThr: 1.905 ± 0.84
0.762PheVal: 0.762 ± 0.34
0.762PheTrp: 0.762 ± 0.603
1.524PheTyr: 1.524 ± 0.62
0.0PheXaa: 0.0 ± 0.0
Gly
4.954GlyAla: 4.954 ± 1.351
1.524GlyCys: 1.524 ± 0.806
3.811GlyAsp: 3.811 ± 1.826
3.049GlyGlu: 3.049 ± 0.761
1.905GlyPhe: 1.905 ± 0.876
6.479GlyGly: 6.479 ± 1.272
1.524GlyHis: 1.524 ± 1.36
6.098GlyIle: 6.098 ± 2.439
5.335GlyLys: 5.335 ± 1.812
4.573GlyLeu: 4.573 ± 1.689
1.905GlyMet: 1.905 ± 0.77
3.049GlyAsn: 3.049 ± 1.247
4.954GlyPro: 4.954 ± 0.564
4.954GlyGln: 4.954 ± 1.472
3.811GlyArg: 3.811 ± 1.397
5.335GlySer: 5.335 ± 1.97
4.573GlyThr: 4.573 ± 1.682
2.668GlyVal: 2.668 ± 0.924
1.905GlyTrp: 1.905 ± 1.105
1.524GlyTyr: 1.524 ± 1.077
0.0GlyXaa: 0.0 ± 0.0
His
1.143HisAla: 1.143 ± 0.347
0.762HisCys: 0.762 ± 0.613
0.0HisAsp: 0.0 ± 0.0
0.762HisGlu: 0.762 ± 0.34
1.143HisPhe: 1.143 ± 1.359
2.287HisGly: 2.287 ± 1.026
0.0HisHis: 0.0 ± 0.0
0.762HisIle: 0.762 ± 0.622
1.143HisLys: 1.143 ± 0.443
2.287HisLeu: 2.287 ± 0.634
0.381HisMet: 0.381 ± 0.318
1.143HisAsn: 1.143 ± 0.523
2.287HisPro: 2.287 ± 1.036
2.287HisGln: 2.287 ± 1.561
0.762HisArg: 0.762 ± 0.514
1.143HisSer: 1.143 ± 0.961
0.762HisThr: 0.762 ± 0.478
0.762HisVal: 0.762 ± 0.478
0.0HisTrp: 0.0 ± 0.0
0.381HisTyr: 0.381 ± 0.318
0.0HisXaa: 0.0 ± 0.0
Ile
2.287IleAla: 2.287 ± 0.812
1.143IleCys: 1.143 ± 0.523
2.287IleAsp: 2.287 ± 0.692
3.43IleGlu: 3.43 ± 0.823
1.143IlePhe: 1.143 ± 0.523
6.098IleGly: 6.098 ± 2.151
1.905IleHis: 1.905 ± 0.887
5.716IleIle: 5.716 ± 1.53
4.954IleLys: 4.954 ± 1.524
4.954IleLeu: 4.954 ± 1.204
0.762IleMet: 0.762 ± 0.321
4.192IleAsn: 4.192 ± 1.937
3.811IlePro: 3.811 ± 1.044
3.43IleGln: 3.43 ± 1.949
4.954IleArg: 4.954 ± 0.669
3.811IleSer: 3.811 ± 0.73
4.192IleThr: 4.192 ± 1.552
5.335IleVal: 5.335 ± 1.49
1.905IleTrp: 1.905 ± 0.808
2.668IleTyr: 2.668 ± 0.898
0.0IleXaa: 0.0 ± 0.0
Lys
5.335LysAla: 5.335 ± 1.156
2.668LysCys: 2.668 ± 1.511
2.668LysAsp: 2.668 ± 0.803
6.86LysGlu: 6.86 ± 1.348
1.905LysPhe: 1.905 ± 0.383
5.716LysGly: 5.716 ± 1.189
1.905LysHis: 1.905 ± 1.121
5.335LysIle: 5.335 ± 1.722
8.003LysLys: 8.003 ± 2.351
5.716LysLeu: 5.716 ± 2.013
1.143LysMet: 1.143 ± 0.504
3.43LysAsn: 3.43 ± 1.339
1.524LysPro: 1.524 ± 0.679
4.573LysGln: 4.573 ± 0.882
2.287LysArg: 2.287 ± 0.562
2.668LysSer: 2.668 ± 1.399
3.43LysThr: 3.43 ± 0.619
4.954LysVal: 4.954 ± 1.587
1.905LysTrp: 1.905 ± 1.059
1.905LysTyr: 1.905 ± 0.579
0.0LysXaa: 0.0 ± 0.0
Leu
3.43LeuAla: 3.43 ± 0.442
1.143LeuCys: 1.143 ± 0.453
4.573LeuAsp: 4.573 ± 1.776
6.098LeuGlu: 6.098 ± 1.294
3.43LeuPhe: 3.43 ± 1.43
4.573LeuGly: 4.573 ± 1.381
1.524LeuHis: 1.524 ± 1.138
3.049LeuIle: 3.049 ± 1.093
8.765LeuLys: 8.765 ± 1.13
4.573LeuLeu: 4.573 ± 0.964
0.762LeuMet: 0.762 ± 0.665
3.811LeuAsn: 3.811 ± 1.514
2.287LeuPro: 2.287 ± 1.354
3.811LeuGln: 3.811 ± 1.045
3.43LeuArg: 3.43 ± 0.895
3.811LeuSer: 3.811 ± 1.176
4.192LeuThr: 4.192 ± 1.231
5.335LeuVal: 5.335 ± 1.727
3.43LeuTrp: 3.43 ± 0.802
2.287LeuTyr: 2.287 ± 0.899
0.0LeuXaa: 0.0 ± 0.0
Met
1.524MetAla: 1.524 ± 0.861
0.0MetCys: 0.0 ± 0.0
0.762MetAsp: 0.762 ± 0.538
2.287MetGlu: 2.287 ± 0.861
0.381MetPhe: 0.381 ± 0.393
1.905MetGly: 1.905 ± 0.708
0.762MetHis: 0.762 ± 0.34
0.762MetIle: 0.762 ± 0.538
0.381MetLys: 0.381 ± 0.393
2.287MetLeu: 2.287 ± 0.597
1.143MetMet: 1.143 ± 1.18
0.381MetAsn: 0.381 ± 0.269
0.0MetPro: 0.0 ± 0.0
1.524MetGln: 1.524 ± 0.961
1.905MetArg: 1.905 ± 1.059
0.381MetSer: 0.381 ± 0.393
1.905MetThr: 1.905 ± 1.074
1.143MetVal: 1.143 ± 0.347
1.143MetTrp: 1.143 ± 0.714
0.381MetTyr: 0.381 ± 0.318
0.0MetXaa: 0.0 ± 0.0
Asn
2.668AsnAla: 2.668 ± 1.756
3.049AsnCys: 3.049 ± 1.727
2.287AsnAsp: 2.287 ± 1.019
3.049AsnGlu: 3.049 ± 1.274
3.811AsnPhe: 3.811 ± 0.78
2.668AsnGly: 2.668 ± 1.169
0.381AsnHis: 0.381 ± 0.558
3.43AsnIle: 3.43 ± 1.41
2.668AsnLys: 2.668 ± 0.603
2.668AsnLeu: 2.668 ± 0.979
1.143AsnMet: 1.143 ± 0.347
3.43AsnAsn: 3.43 ± 1.219
3.811AsnPro: 3.811 ± 1.032
1.143AsnGln: 1.143 ± 0.807
2.287AsnArg: 2.287 ± 0.692
2.287AsnSer: 2.287 ± 1.202
3.811AsnThr: 3.811 ± 1.134
1.905AsnVal: 1.905 ± 0.563
1.524AsnTrp: 1.524 ± 0.394
1.143AsnTyr: 1.143 ± 0.606
0.0AsnXaa: 0.0 ± 0.0
Pro
4.573ProAla: 4.573 ± 1.444
0.762ProCys: 0.762 ± 0.637
2.668ProAsp: 2.668 ± 1.018
4.192ProGlu: 4.192 ± 1.493
1.524ProPhe: 1.524 ± 0.563
5.716ProGly: 5.716 ± 1.016
1.143ProHis: 1.143 ± 0.523
6.86ProIle: 6.86 ± 1.597
2.287ProLys: 2.287 ± 0.546
4.954ProLeu: 4.954 ± 1.107
0.762ProMet: 0.762 ± 0.598
2.668ProAsn: 2.668 ± 1.22
2.668ProPro: 2.668 ± 0.921
3.811ProGln: 3.811 ± 1.456
2.287ProArg: 2.287 ± 1.475
1.905ProSer: 1.905 ± 0.726
1.905ProThr: 1.905 ± 0.786
5.335ProVal: 5.335 ± 0.827
1.143ProTrp: 1.143 ± 1.222
1.143ProTyr: 1.143 ± 0.677
0.0ProXaa: 0.0 ± 0.0
Gln
6.098GlnAla: 6.098 ± 1.079
0.762GlnCys: 0.762 ± 0.34
2.668GlnAsp: 2.668 ± 0.803
4.573GlnGlu: 4.573 ± 1.157
0.762GlnPhe: 0.762 ± 0.346
4.573GlnGly: 4.573 ± 1.082
1.524GlnHis: 1.524 ± 1.3
3.43GlnIle: 3.43 ± 1.601
4.573GlnLys: 4.573 ± 1.564
5.335GlnLeu: 5.335 ± 1.393
2.668GlnMet: 2.668 ± 1.625
2.668GlnAsn: 2.668 ± 1.53
2.287GlnPro: 2.287 ± 1.541
1.905GlnGln: 1.905 ± 0.985
3.43GlnArg: 3.43 ± 1.275
1.905GlnSer: 1.905 ± 1.098
0.381GlnThr: 0.381 ± 0.269
2.287GlnVal: 2.287 ± 0.941
0.762GlnTrp: 0.762 ± 0.538
1.524GlnTyr: 1.524 ± 1.077
0.0GlnXaa: 0.0 ± 0.0
Arg
4.573ArgAla: 4.573 ± 1.738
0.381ArgCys: 0.381 ± 0.318
3.43ArgAsp: 3.43 ± 1.115
6.479ArgGlu: 6.479 ± 1.775
1.524ArgPhe: 1.524 ± 0.732
3.049ArgGly: 3.049 ± 1.24
0.381ArgHis: 0.381 ± 0.604
3.811ArgIle: 3.811 ± 2.566
4.573ArgLys: 4.573 ± 1.327
2.287ArgLeu: 2.287 ± 0.769
1.524ArgMet: 1.524 ± 0.987
1.905ArgAsn: 1.905 ± 0.694
3.811ArgPro: 3.811 ± 1.398
4.192ArgGln: 4.192 ± 1.009
5.716ArgArg: 5.716 ± 3.63
2.287ArgSer: 2.287 ± 0.615
2.287ArgThr: 2.287 ± 1.331
1.905ArgVal: 1.905 ± 0.874
1.524ArgTrp: 1.524 ± 0.566
0.381ArgTyr: 0.381 ± 0.269
0.0ArgXaa: 0.0 ± 0.0
Ser
1.905SerAla: 1.905 ± 0.579
0.381SerCys: 0.381 ± 0.269
3.43SerAsp: 3.43 ± 0.823
4.573SerGlu: 4.573 ± 1.105
1.524SerPhe: 1.524 ± 0.9
2.668SerGly: 2.668 ± 1.169
0.762SerHis: 0.762 ± 0.598
1.905SerIle: 1.905 ± 1.221
4.192SerLys: 4.192 ± 1.835
4.192SerLeu: 4.192 ± 1.745
0.762SerMet: 0.762 ± 0.538
2.668SerAsn: 2.668 ± 1.131
3.43SerPro: 3.43 ± 0.836
4.192SerGln: 4.192 ± 1.627
1.524SerArg: 1.524 ± 0.743
2.668SerSer: 2.668 ± 1.076
5.335SerThr: 5.335 ± 2.324
2.668SerVal: 2.668 ± 0.648
0.762SerTrp: 0.762 ± 0.538
0.381SerTyr: 0.381 ± 0.558
0.0SerXaa: 0.0 ± 0.0
Thr
2.668ThrAla: 2.668 ± 0.913
0.762ThrCys: 0.762 ± 0.52
3.43ThrAsp: 3.43 ± 1.202
6.098ThrGlu: 6.098 ± 1.198
1.143ThrPhe: 1.143 ± 0.453
4.192ThrGly: 4.192 ± 1.187
2.287ThrHis: 2.287 ± 1.179
3.811ThrIle: 3.811 ± 0.89
2.668ThrLys: 2.668 ± 1.062
6.098ThrLeu: 6.098 ± 2.309
0.0ThrMet: 0.0 ± 0.0
3.811ThrAsn: 3.811 ± 1.689
3.811ThrPro: 3.811 ± 1.13
2.287ThrGln: 2.287 ± 0.543
1.905ThrArg: 1.905 ± 0.982
3.049ThrSer: 3.049 ± 1.464
4.954ThrThr: 4.954 ± 1.715
3.049ThrVal: 3.049 ± 1.52
2.287ThrTrp: 2.287 ± 0.804
1.524ThrTyr: 1.524 ± 0.892
0.0ThrXaa: 0.0 ± 0.0
Val
4.192ValAla: 4.192 ± 1.271
0.381ValCys: 0.381 ± 0.558
2.668ValAsp: 2.668 ± 0.828
1.905ValGlu: 1.905 ± 0.961
0.762ValPhe: 0.762 ± 0.603
6.098ValGly: 6.098 ± 2.05
2.668ValHis: 2.668 ± 0.978
4.573ValIle: 4.573 ± 1.04
3.811ValLys: 3.811 ± 1.157
3.43ValLeu: 3.43 ± 0.886
0.381ValMet: 0.381 ± 0.318
1.905ValAsn: 1.905 ± 1.346
4.954ValPro: 4.954 ± 0.984
3.43ValGln: 3.43 ± 0.921
3.049ValArg: 3.049 ± 0.536
3.049ValSer: 3.049 ± 0.731
2.668ValThr: 2.668 ± 1.17
4.192ValVal: 4.192 ± 1.624
1.143ValTrp: 1.143 ± 0.713
1.524ValTyr: 1.524 ± 0.535
0.0ValXaa: 0.0 ± 0.0
Trp
1.905TrpAla: 1.905 ± 0.495
0.762TrpCys: 0.762 ± 0.598
1.143TrpAsp: 1.143 ± 0.477
2.287TrpGlu: 2.287 ± 0.763
0.0TrpPhe: 0.0 ± 0.0
1.143TrpGly: 1.143 ± 0.523
0.381TrpHis: 0.381 ± 0.558
0.762TrpIle: 0.762 ± 0.321
2.668TrpLys: 2.668 ± 0.695
0.762TrpLeu: 0.762 ± 0.822
1.143TrpMet: 1.143 ± 0.666
1.143TrpAsn: 1.143 ± 0.802
1.524TrpPro: 1.524 ± 0.493
1.524TrpGln: 1.524 ± 0.76
1.905TrpArg: 1.905 ± 0.753
0.762TrpSer: 0.762 ± 0.822
2.287TrpThr: 2.287 ± 1.215
1.905TrpVal: 1.905 ± 0.708
0.762TrpTrp: 0.762 ± 0.538
0.762TrpTyr: 0.762 ± 0.34
0.0TrpXaa: 0.0 ± 0.0
Tyr
1.905TyrAla: 1.905 ± 0.923
0.762TyrCys: 0.762 ± 0.637
0.762TyrAsp: 0.762 ± 0.538
0.762TyrGlu: 0.762 ± 0.34
0.762TyrPhe: 0.762 ± 0.538
1.524TyrGly: 1.524 ± 0.714
0.762TyrHis: 0.762 ± 0.478
0.381TyrIle: 0.381 ± 0.269
2.287TyrLys: 2.287 ± 1.283
1.143TyrLeu: 1.143 ± 0.677
0.762TyrMet: 0.762 ± 0.34
2.287TyrAsn: 2.287 ± 0.895
1.905TyrPro: 1.905 ± 0.75
2.287TyrGln: 2.287 ± 1.32
1.143TyrArg: 1.143 ± 0.347
1.143TyrSer: 1.143 ± 0.477
0.762TyrThr: 0.762 ± 0.478
1.524TyrVal: 1.524 ± 0.659
0.381TyrTrp: 0.381 ± 0.269
1.143TyrTyr: 1.143 ± 0.523
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 8 proteins (2625 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