Data table for symetric interior loops of size 2

Free energies at 37 degrees for DNA

Data Arrangement:

Y

------------------

(X) A C G T

------------------

5' --> 3'

X

A A

U U

Y

3' <-- 5'

(A) . . . .

(C) . . . .

(G) . . . .

(U) . . . .

Y Y Y Y Y Y

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

A C G T A C G T A C G T A C G T A C G T A C G T

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3'

X X X X X X

A A A C A G A T A G A T

T T T G T C T A T T T G

Y Y Y Y Y Y

3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5'

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

1.7 1.7 -0.4 1.7 1.1 1.1 -1.0 1.1 1.1 1.1 -1.0 1.1 1.7 1.7 -0.4 1.7 1.7 1.7 -0.4 1.7 1.7 1.7 -0.4 1.7

1.7 1.7 1.7 1.5 1.1 1.1 1.1 1.0 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.2 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

Y Y Y Y Y Y

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

A C G T A C G T A C G T A C G T A C G T A C G T

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3'

X X X X X X

C A C C C G C T C G C T

G T G G G C G A G T G G

Y Y Y Y Y Y

3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5'

1.1 1.1 1.1 1.1 0.4 -0.4 0.4 0.4 1.1 0.4 0.4 0.4 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1

1.1 1.1 1.1 1.1 0.3 0.5 0.4 0.5 0.4 0.4 0.4 0.4 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1

1.1 1.1 -1.0 1.1 -0.1 0.4 -1.7 0.4 0.4 0.4 -1.4 0.4 1.1 1.1 -1.0 1.1 1.1 1.1 -1.0 1.1 1.1 1.1 -1.0 1.1

1.1 1.1 1.1 1.1 0.4 0.0 0.4 -0.3 0.4 0.4 0.4 0.4 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1

Y Y Y Y Y Y

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

A C G T A C G T A C G T A C G T A C G T A C G T

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3'

X X X X X X

G A G C G G G T G G G T

C T C G C C C A C T C G

Y Y Y Y Y Y

3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5'

1.1 1.1 1.1 1.1 0.8 0.4 0.4 0.4 0.4 0.3 -0.1 0.4 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1

1.1 1.1 1.1 1.1 0.4 0.4 0.4 0.4 -0.4 0.5 0.4 0.0 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1

1.1 1.1 -1.0 1.1 0.4 0.4 -2.1 0.4 0.4 0.4 -1.7 0.4 1.1 1.1 -1.0 1.1 1.1 1.1 -1.0 1.1 1.1 1.1 -1.0 1.1

1.1 1.1 1.1 1.1 0.4 0.4 0.4 -0.7 0.4 0.5 0.4 -0.3 1.1 1.1 1.1 1.0 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1

Y Y Y Y Y Y

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

A C G T A C G T A C G T A C G T A C G T A C G T

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3'

X X X X X X

T A T C T G T T T G T T

A T A G A C A A A T A G

Y Y Y Y Y Y

3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5'

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

1.7 1.7 -0.4 1.7 1.1 1.1 -1.0 1.1 1.1 1.1 -1.0 1.1 1.7 1.7 -0.4 1.7 1.7 1.7 -0.4 1.7 1.7 1.7 -0.4 1.7

1.7 1.7 1.7 1.8 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.5 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

Y Y Y Y Y Y

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

A C G U A C G U A C G U A C G U A C G U A C G U

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3'

X X X X X X

G A G C G G G U G G G U

U U U G U C U A U U U G

Y Y Y Y Y Y

3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5'

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

1.7 1.7 -0.4 1.7 1.1 1.1 -1.0 1.1 1.1 1.1 -1.0 1.1 1.7 1.7 -0.4 1.7 1.7 1.7 -0.4 1.7 1.7 1.7 -0.4 1.7

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

Y Y Y Y Y Y

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

A C G U A C G U A C G U A C G U A C G U A C G U

------------------ ------------------ ------------------ ------------------ ------------------ ------------------

5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3' 5' --> 3'

X X X X X X

U A U C U G U U U G U U

G U G G G C G A G U G G

Y Y Y Y Y Y

3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5' 3' <-- 5'

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7

1.7 1.7 -0.4 1.7 1.1 1.1 -1.0 1.1 1.1 1.1 -1.0 1.1 1.7 1.7 -0.4 1.7 1.7 1.7 -0.4 1.7 1.7 1.7 -0.4 1.7

1.7 1.7 1.7 1.7 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.1 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7 1.7