Alignment of Intron_maturase_II with d2rig_

Alignment of Intron_maturase_II with d2rig_

PSSM Score Key
-10																			10

Bad																			Good

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FASTA version

Intron__PSS	Predicted Secondary Structure for your Sequence
Intron__Seq	Your Sequence
d2rig___Seq	Library Sequence
d2rig___SS	Known Secondary Structure of the Library Sequence (Assigned by STRIDE)
CORE	A measure of the burial and number of contacts made by a residue. (9 very buried/making many contacts, 0 not buried/making few contacts

Intron__PSS

C

C

E

E

E

E

E

C

C

C

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

C

.

.

C

C

C

C

C

C

C

C

C

E

E

C

C

.

.

C

C

C

C

H

H

H

Intron__Seq

H

T

S

L

V

V

N

A

P

I

R

S

I

V

M

K

L

N

K

H

G

Y

C

S

H

G

.

.

I

L

G

K

P

R

G

V

G

R

L

I

H

.

.

E

E

M

K

T

I

L

-------

+

+

+

-

-

+

-

+

L

+

-

-

-

+

+

-

-

-

G

+

P

-

-

+

+

-

L

-

E

E

-

+

-

+

d2rig___Seq

.

.

.

.

.

.

Q

D

T

L

T

R

E

T

E

H

L

K

A

Y

L

K

A

N

T

S

D

V

A

N

G

G

P

L

F

L

N

I

L

R

N

W

K

E

E

S

D

N

K

I

d2rig___SS

.

.

.

.

.

.

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

H

H

H

CORE

.

.

.

.

.

.

0

0

0

0

0

0

0

2

0

0

6

0

0

0

9

0

0

0

0

0

0

0

0

0

0

0

0

0

1

0

0

1

2

0

0

0

0

0

0

0

0

0

0

0

Intron__PSS

H

H

H

H

H

H

H

C

C

H

H

H

H

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

H

H

H

H

H

Intron__Seq

M

H

Y

L

A

V

G

R

G

I

M

N

Y

Y

R

L

A

T

N

F

T

T

L

R

G

R

I

T

Y

I

L

F

Y

S

C

C

L

T

L

A

S

K

F

K

L

N

T

V

K

K

-------

+

-

-

-

-

V

-

-

-

-

+

-

-

L

-

-

+

-

+

-

-

+

-

+

-

-

I

-

-

-

+

-

K

F

-

-

+

+

+

K

d2rig___Seq

I

Q

S

Q

I

V

S

F

Y

F

K

L

F

D

N

L

K

D

H

E

V

I

K

K

S

.

M

E

S

I

.

.

.

.

.

K

E

D

I

F

V

K

F

F

N

S

N

L

T

K

d2rig___SS

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

H

H

H

H

.

H

H

H

H

.

.

.

.

.

H

H

H

H

H

H

H

H

C

C

C

C

H

H

H

CORE

2

0

1

0

2

2

1

0

2

1

0

0

1

0

0

4

0

0

0

0

0

5

0

0

6

.

5

0

2

7

.

.

.

.

.

0

0

0

2

0

0

0

0

0

0

0

0

0

0

0

Intron__PSS

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

C

C

E

E

E

E

E

E

E

E

C

C

C

.

.

.

C

C

C

C

C

C

C

C

C

C

E

E

E

E

E

E

E

E

E

Intron__Seq

V

I

L

K

F

G

K

V

L

V

D

P

H

S

K

V

S

F

S

I

D

D

F

K

I

R

H

K

.

.

.

M

N

M

T

D

S

N

Y

T

P

D

E

I

L

D

R

Y

K

Y

-------

+

+

-

+

-

+

S

+

D

D

-

+

+

+

K

-

-

-

-

-

N

+

d2rig___Seq

M

.

.

.

.

.

D

D

F

Q

N

.

.

.

L

T

R

I

S

V

D

D

R

L

V

Q

R

K

A

V

S

E

L

S

N

V

L

N

F

.

.

.

.

.

.

.

.

.

.

.

d2rig___SS

H

.

.

.

.

.

H

H

H

H

C

.

.

.

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

C

.

.

.

.

.

.

.

.

.

.

.

CORE

1

.

.

.

.

.

0

0

2

0

0

.

.

.

0

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

.

.

.

.

.

.

.

.

.

.

.

Intron__PSS

E

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

C

C

C

Intron__Seq

M

L

P

R

S

L

S

L

F

S

G

I

C

Q

I

C

G

S

K

-------

d2rig___Seq

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.

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.

d2rig___SS

.

.

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.

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.

CORE

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