Table 1 Codon sites with preference shifts detected with MutSelC60 and MutSelBC profiles, and sites identified in previous studies ([3] and [30])

44

0.0582

0.2155

0.966

YES

A((S))

S((L))((A))

64

0.148

0.0170

0.954

M(I)((T))

T((M))((I))

76

0.00346

0

T((M))((K))((I))((A))

T

81

0.0165

0

T((I))((A))

M(V)((T))((I))

102

0.166

0.0000160

N((S))((K))

N

105

0.00535

0

YES

T((A))

V(M)((T))((L))((I))

106

0.0184

1

T((A))

T(A)

107

0.0116

0.00637

S((N))((G))

S(N)

109

0.272

0.0005

V((I))

V(I)

122

0.0708

0.00608

V((M))((I))((A))

V((I))((F))

199

0.0278

1

0.997

YES

A*

S

249

0.445

0

E*

E

271

0.0154

0.974

0.958

T((I))((A))

A((T))

292

0.0127

0.0265

I(V)((T))((M))

T((I))

338

0.0124

0

V((I))((A))

V(I)

377

0.00150

0.0655

A*

A((V))((T))((E))

471

0.00383

0.0845

T((I))((A))

T((P))((I))((A))

475

0.69

1

0.994

YES

L*

M

493

0.00257

0.91

YES

R*

R((K))((G))

522

0.0516

0.008

Q*

Q((H))

524

0.168

0.00547

T((M))((I))

T((I))

559

0.00799

0.26

T((M))((I))((A))

T(A)((S))((N))((I))

567

0.0852

0.216

0.977

D((N))((E))

N((D))

569

0.175

1

YES

T*

T(A)((S))

588

0.00283

0.00609

0.971

A((V))((T))

I((V))((A))

591

0.265

0.001

Q((L))

Q

613

0.0776

0.115

YES

V((A))

T((V))((I))((A))

627

0.0111

0

0.977

YES

E((K))

K((R))

661

0.00126

0.967

YES

A((V))((T))

T((V))((A))

674

0.00644

0.0555

0.969

A((S))

T((P))((I))((A))

676

0.0165

0.242

T((I))((A))

I(T)

682

0.372

0

YES

G*

G(S)((N))

684

0.0596

0.999

YES

A((T))

S(A)

702

0.552

1

0.955

YES

K((R))

R((K))

711

0.17

0

N((S))

N

715

0.0916

0.00584

N((S))

N((T))

740

0.00239

0

YES

D*

D((N))

754

0.0125

0.0335

I*

I((S))((F))